CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_012124	Salmonella enterica subsp. enterica serovar Paratyphi C str. RKS4594 plasmid pSPCV, complete sequence	0 crisprs	cas14j	0	0	1	0
NC_012125	Salmonella enterica subsp. enterica serovar Paratyphi C str. RKS4594, complete sequence	2 crisprs	WYL,DinG,DEDDh,cas3,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK	0	6	7	0

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

39961 : 46865

Escherichia_phage(33.33%)

transposase

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000925627.1\|39961_40384_+	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	1.0e-28	51.6
WP_000457543.1\|40383_41658_+	Y-family DNA polymerase	F1C5A5	Cronobacter_phage	4.3e-155	64.0
WP_000064275.1\|41739_42714_-	ParB/RepB/Spo0J family partition protein	A0A1B0V750	Salmonella_phage	1.1e-83	52.9
WP_000427676.1\|42713_43919_-	AAA family ATPase	A0A077SL49	Escherichia_phage	1.5e-162	69.3
WP_000728917.1\|44333_45275_+\|transposase	Rpn family recombination-promoting nuclease/putative transposase	Q2A0A7	Sodalis_phage	2.0e-72	54.3
WP_001541562.1\|45306_45873_-	DUF2913 family protein	NA	NA	NA	NA
WP_001527010.1\|45929_46265_-	hypothetical protein	NA	NA	NA	NA
WP_041030921.1\|46448_46865_-	hypothetical protein	O64348	Escherichia_phage	8.2e-07	42.9

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

2. NC_012125

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CRISPR-Cas detection and classification

Crispr_ID: NC_012125_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012125_1

3010604-3011242

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CGGTTTATCCCCGCTNGCGCGGGGAACAC	CRT
CGGTTTATCCCCGCTAGCGCGGGGAACAC	PILER-CR

10 spacers

cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3

The CRISPR arrays of NC_012125_1

>merge|NC_012125|1|3010604-3011242|CRISPRCasFinder,CRT,PILER-CR
GTGTTTATCCCCGCTGACGCGGGGAACATTTTTCAGCCCTTGTCGACTGCGGAACGCCCCTCGGTTTATCCCCGCTGGCGCGGGGAACACTGGCCGCGCAAATCGTCATGATTTAATTGCGTCGGTTTATCCCCGCTGGCGCGGGGAACACTGGCGGGCCTTGTTTATCGCCAGCTTTTCAATCGGTTTATCCCCGCTGGCGCGGGGAGCACTGTTTTTATACAGTTTTACATGATACTGTAACCGGTTTATCCCCGCTGGCGCGGGGAACACTCCGGATGTCTCCCCCCGCGCCGTTTGAATATCGGTTTATCCCCGCTGGCGCGGGGAACACTGGAAGATATTGAAAGCGCCCAATCTTCCCAGCGGTTTATCCCCGCTAGCGCGGGGAACACGGCATGATACGCGCTGACGAAACGTTATCCGACGGTTTATCCCCGCTAGCGCGGGGAACACTTTCACCCTGCCTGTAGATGCGAGGAAAATAGCGGTTTATCCCCGCTAGCGCGGGGAACACTCCAACCTGAGCTTCAGGAGGAAGTGTCCAACCGGTTTATCCCCGCTAGCGCGGGGAACACCCAGTGTGCTGGAGTGAGGCGTGAATATGCAGCAGTTTATCCCCGCTAGCGCGGGGAACAC

>NC_012125|1|1|3010604-3011242|CRISPRCasFinder
GTGTTTATCCCCGCTGACGCGGGGAACAT	TTTTCAGCCCTTGTCGACTGCGGAACGCCCCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCCGCGCAAATCGTCATGATTTAATTGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCGGGCCTTGTTTATCGCCAGCTTTTCAAT
CGGTTTATCCCCGCTGGCGCGGGGAGCAC	TGTTTTTATACAGTTTTACATGATACTGTAAC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCCGGATGTCTCCCCCCGCGCCGTTTGAATAT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGAAGATATTGAAAGCGCCCAATCTTCCCAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	GGCATGATACGCGCTGACGAAACGTTATCCGA
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TTTCACCCTGCCTGTAGATGCGAGGAAAATAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TCCAACCTGAGCTTCAGGAGGAAGTGTCCAAC
CGGTTTATCCCCGCTAGCGCGGGGAACAC	CCAGTGTGCTGGAGTGAGGCGTGAATATGCAG
CAGTTTATCCCCGCTAGCGCGGGGAACAC

>NC_012125|1|1|3010604-3011242|CRT
GTGTTTATCCCCGCTGACGCGGGGAACAT	TTTTCAGCCCTTGTCGACTGCGGAACGCCCCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCCGCGCAAATCGTCATGATTTAATTGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCGGGCCTTGTTTATCGCCAGCTTTTCAAT
CGGTTTATCCCCGCTGGCGCGGGGAGCAC	TGTTTTTATACAGTTTTACATGATACTGTAAC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCCGGATGTCTCCCCCCGCGCCGTTTGAATAT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGAAGATATTGAAAGCGCCCAATCTTCCCAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	GGCATGATACGCGCTGACGAAACGTTATCCGA
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TTTCACCCTGCCTGTAGATGCGAGGAAAATAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TCCAACCTGAGCTTCAGGAGGAAGTGTCCAAC
CGGTTTATCCCCGCTAGCGCGGGGAACAC	CCAGTGTGCTGGAGTGAGGCGTGAATATGCAG
CAGTTTATCCCCGCTAGCGCGGGGAACAC

>NC_012125|1|1|3010665-3011242|PILER-CR
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCCGCGCAAATCGTCATGATTTAATTGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGCGGGCCTTGTTTATCGCCAGCTTTTCAAT
CGGTTTATCCCCGCTGGCGCGGGGAGCAC	TGTTTTTATACAGTTTTACATGATACTGTAAC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCCGGATGTCTCCCCCCGCGCCGTTTGAATAT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGGAAGATATTGAAAGCGCCCAATCTTCCCAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	GGCATGATACGCGCTGACGAAACGTTATCCGA
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TTTCACCCTGCCTGTAGATGCGAGGAAAATAG
CGGTTTATCCCCGCTAGCGCGGGGAACAC	TCCAACCTGAGCTTCAGGAGGAAGTGTCCAAC
CGGTTTATCCCCGCTAGCGCGGGGAACAC	CCAGTGTGCTGGAGTGAGGCGTGAATATGCAG
CAGTTTATCCCCGCTAGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012125.1\|WP_000085112.1\|3013180_3013927_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|187776
NC_012125.1\|WP_001219244.1\|3004258_3004738_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	unknown	unknown	gnl\|CDD\|178851
NC_012125.1\|WP_000029744.1\|3017125_3019789_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124
NC_012125.1\|WP_001290656.1\|3022083_3023796_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	unknown	unknown	gnl\|CDD\|237402
NC_012125.1\|WP_001092261.1\|3006934_3008374_-\|sulfate-adenylyltransferase-subunit-CysN	unknown	unknown	gnl\|CDD\|235349
NC_012125.1\|WP_000281476.1\|3012548_3013199_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09664_cas6e_CAS-I-E	gnl\|CDD\|273869
NC_012125.1\|WP_000741645.1\|3004737_3005448_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	unknown	unknown	gnl\|CDD\|234670
NC_012125.1\|WP_000490481.1\|3009542_3010589_+\|aminopeptidase	unknown	unknown	gnl\|CDD\|182299
NC_012125.1\|WP_000517480.1\|3005466_3005778_-\|cell-division-protein-FtsB	unknown	unknown	gnl\|CDD\|179156
NC_012125.1\|WP_000134246.1\|3003212_3004262_-\|tRNA-pseudouridine(13)-synthase-TruD	unknown	unknown	gnl\|CDD\|234884
NC_012125.1\|WP_000368587.1\|3015554_3017114_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|274192
NC_012125.1\|WP_001518648.1\|3011338_3011632_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	cd09648_cas2_CAS-I-E	gnl\|CDD\|236930
NC_012125.1\|WP_000206408.1\|3013937_3014996_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|273843
NC_012125.1\|WP_001221538.1\|3002470_3003232_-\|5'/3'-nucleotidase-SurE	unknown	unknown	gnl\|CDD\|234732
NC_012125.1\|WP_000372384.1\|3008383_3009292_-\|sulfate-adenylyltransferase-subunit-CysD	unknown	unknown	gnl\|CDD\|235375
NC_012125.1\|WP_023235206.1\|3005968_3006292_-\|DUF3561-family-protein	unknown	unknown	gnl\|CDD\|371891
NC_012125.1\|WP_024131732.1\|3020233_3021187_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NC_012125.1\|WP_001173659.1\|3006342_3006948_-\|adenylyl-sulfate-kinase	unknown	unknown	gnl\|CDD\|179661
NC_012125.1\|WP_000144833.1\|3011631_3012552_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_012125.1\|WP_000029526.1\|3015009_3015558_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862

Protein	Function_ID	Function_description	E-value
NC_012125.1\|WP_000085112.1\|3013180_3013927_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|187776	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	6.76499e-48
NC_012125.1\|WP_001219244.1\|3004258_3004738_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	gnl\|CDD\|178851	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed.	1.27909e-104
NC_012125.1\|WP_000029744.1\|3017125_3019789_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	0
NC_012125.1\|WP_001290656.1\|3022083_3023796_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	gnl\|CDD\|237402	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit.	0
NC_012125.1\|WP_001092261.1\|3006934_3008374_-\|sulfate-adenylyltransferase-subunit-CysN	gnl\|CDD\|235349	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.	0
NC_012125.1\|WP_000281476.1\|3012548_3013199_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|273869	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family, represented by CT1974 from Chlorobium tepidum, is found in the Ecoli subtype of CRISPR/Cas regions and is designated Cse3 (CRISPR/Cas Subtype Ecoli protein 3). The representative of this family from Thermus thermophilus HB8 (TTHB192) has been crystallized and found to have a structure consisting of two domains with opposing parallel beta-sheets known as a beta-sheet platform. This structure is similar to those found in the Sex-lethal protein and poly(A)-binding protein. This structure is consistent with an RNA-binding function.	1.09322e-73
NC_012125.1\|WP_000741645.1\|3004737_3005448_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	gnl\|CDD\|234670	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase.	1.74134e-119
NC_012125.1\|WP_000490481.1\|3009542_3010589_+\|aminopeptidase	gnl\|CDD\|182299	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional.	0
NC_012125.1\|WP_000517480.1\|3005466_3005778_-\|cell-division-protein-FtsB	gnl\|CDD\|179156	PRK00888, ftsB, cell division protein FtsB; Reviewed.	1.08865e-64
NC_012125.1\|WP_000134246.1\|3003212_3004262_-\|tRNA-pseudouridine(13)-synthase-TruD	gnl\|CDD\|234884	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed.	0
NC_012125.1\|WP_000368587.1\|3015554_3017114_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|274192	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family, represented by CT1972 from Chlorobium tepidum, is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It is designated Cse1.	2.75345e-173
NC_012125.1\|WP_001518648.1\|3011338_3011632_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|236930	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional.	1.1867e-62
NC_012125.1\|WP_000206408.1\|3013937_3014996_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|273843	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum and is part of the Ecoli subtype of CRISPR/Cas locis. It is designated Cse4, for CRISPR/Cas Subtype Ecoli protein 4.	8.05003e-136
NC_012125.1\|WP_001221538.1\|3002470_3003232_-\|5'/3'-nucleotidase-SurE	gnl\|CDD\|234732	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional.	1.7078e-146
NC_012125.1\|WP_000372384.1\|3008383_3009292_-\|sulfate-adenylyltransferase-subunit-CysD	gnl\|CDD\|235375	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD.	0
NC_012125.1\|WP_023235206.1\|3005968_3006292_-\|DUF3561-family-protein	gnl\|CDD\|371891	pfam12084, DUF3561, Protein of unknown function (DUF3561). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.	2.11782e-47
NC_012125.1\|WP_024131732.1\|3020233_3021187_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NC_012125.1\|WP_001173659.1\|3006342_3006948_-\|adenylyl-sulfate-kinase	gnl\|CDD\|179661	PRK03846, PRK03846, adenylylsulfate kinase; Provisional.	3.2499e-145
NC_012125.1\|WP_000144833.1\|3011631_3012552_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274693	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.	3.64033e-157
NC_012125.1\|WP_000029526.1\|3015009_3015558_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	8.80691e-33

>NC_012125.1|WP_000490481.1|3009542_3010589_+|aminopeptidase
MFSATRRFAVILALGVGFILPAQAASPGPGEIANTQARHIATFFPGRMTGSPAEMLSADYLRQQFTQMGYQSDIRTFNSRFIYTTKDNRKNWHNVTGSTVIAAHEGRVPQQIIIMAHLDTYAPQSDADVDANLGGLTLQGMDDNAAGLGVMLELAARLKDIPTHYGIRFIATSGEEEGKLGAENLLKRMSDAEKKNTLLVINLDNLIVGDKLYFNSGKNTPEAVRTLTRDRALAIARRYGIAANTNPGRNPSYPKGTGCCNDAEVFDKAGISVLSVEATNWNLGKKDGYQQRVKNASFPNGNSWHDVRLDNQQHIDKALPGRIERRSRDVVRIMLPLVKELAKAEKTS
>NC_012125.1|WP_000372384.1|3008383_3009292_-|sulfate-adenylyltransferase-subunit-CysD
MDQKRLTHLRQLEAESIHIIREVAAEFANPVMLYSIGKDSSVMLHLARKAFYPGTLPFPLLHVDTGWKFREMYAFRDRTANAYGCELLVHKNPEGVAMGINPFVHGSAKHTDIMKTEGLKQALNKYGFDAAFGGARRDEEKSRAKERIYSFRDRFHRWDPKNQRPELWRNYNGQINKGESIRVFPLSNWTEQDIWQYIWLENIDIVPLYLAAERPVLERDGMLMMVDDDRIDLQPGEVIKKRMVRFRTLGCWPLTGAVESHAQTLPEIIEEMLVSTTSERQGRMIDRDQAGSMELKKRQGYF
>NC_012125.1|WP_001092261.1|3006934_3008374_-|sulfate-adenylyltransferase-subunit-CysN
MNTILAQQIANEGGVEAWMIAQQHKSLLRFLTCGSVDDGKSTLIGRLLHDTLQIYEDQLSSLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFISTLLGIKHLVVAINKMDLVGYREETFARIREDYLTFAEQLPGDLDIRFVPLSALEGDNVAAQSANMRWYSGPTLLEVLETVDIQRAVDRQPMRFPVQYVNRPNLDFRGYAGTLASGSVKVGERIKVLPSGVESSVARIVTFDGDKEEACAGEAITLVLNDDIDISRGDLLLAANETLAPARHAAIDVVWMAEQPLAPGQSYDVKLAGKKTRARIEAIRYQIDINNLTQRDVESLPLNGIGLVEMTFDEPLALDIYQQNPVTGGLIFIDRLSNVTVGAGMVRELDERGATPSVEYSAFELELNALVRRHFPHWDARDLLGDKHGAA
>NC_012125.1|WP_001173659.1|3006342_3006948_-|adenylyl-sulfate-kinase
MALHDENVVWHSHPVTVAAREQLHGHRGVVLWFTGLSGSGKSTVAGALEEALHHRGVSTYLLDGDNVRHGLCRDLGFSDADRQENIRRVGEVASLMADAGLIVLTAFISPHRAERQLVKERVGHDRFIEIYVNTPLAICEQRDPKGLYKKARAGELRNFTGIDAIYEAPDSPQVHLNGEQLVTNLVSQLLDLLRRRDIIRS
>NC_012125.1|WP_023235206.1|3005968_3006292_-|DUF3561-family-protein
MRNSHNITFTRSDAFMVDDDATSAFPGAVVGFMSWLLALGIPFLLYGPNTLFFFLYTWPFFLALMPVSVIIGIVLHLLVKGKILFSIMFTLLAVGALFGALFIWLLG
>NC_012125.1|WP_000517480.1|3005466_3005778_-|cell-division-protein-FtsB
MGKLTLLLLALLVWLQYSLWFGKNGIHDYSRVNDDVVAQQATNAKLKARNDQLFAEIDDLNGGQEAIEERARNELSMTKPGETFYRLVPDASKRAATAGQTHR
>NC_012125.1|WP_000741645.1|3004737_3005448_-|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase
MAATLLDVCAVVPAAGFGRRMQTECPKQYLSIGNKTILEHSVHALLAHPRVTRVVIAISPGDHRFAQLPLANHPQITVVDGGNERADSVLAGLQAVAEAQWVLVHDAARPCLHQDDLARLLAISENSRVGGILASPVRDTMKRGEPGKNAIAHTVERADLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEYCGFHPVLVEGRADNIKVTRPEDLALAEFYLTRTIHQEKA
>NC_012125.1|WP_001219244.1|3004258_3004738_-|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase
MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLMKAAK
>NC_012125.1|WP_000134246.1|3003212_3004262_-|tRNA-pseudouridine(13)-synthase-TruD
MTEFDNLTWLHGKPQGSGLLKANPEDFVVVEDLGFTPDGEGEHILLRILKNGCNTRFVADALAKFLKIHAREVSFAGQKDKHAVTEQWLCARVPGKEMPDFSAFQLEGCKVLEYARHKRKLRLGALKGNAFTLVLREISDRRDVETRLQAIRDGGVPNYFGAQRFGIGGSNLQGALRWAQSNAPVRDRNKRSFWLSAARSALFNQIVHQRLKKPDFNQVVDGDALQLAGRGSWFVATSEELPELQRRVDEKELMITASLPGSGEWGTQRAALAFEQDAIAQETVLQSLLLREKVEASRRAMLLYPQQLSWNWWDDVTVELRFWLPAGSFATSVVRELINTMGDYAHIAE
>NC_012125.1|WP_001221538.1|3002470_3003232_-|5'/3'-nucleotidase-SurE
MRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMEGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW
>NC_012125.1|WP_001518648.1|3011338_3011632_-|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MSMVVVVTENVPPRLRGRLAVWLLEVRAGVYVGDTSKRIREMIWQQITQLGGVGNVVMAWATNTESGFEFQTWGENRRIPVDLDGLRLVSFLPVENQ
>NC_012125.1|WP_000144833.1|3011631_3012552_-|type-I-E-CRISPR-associated-endonuclease-Cas1
MTFVPLNPIPLKDRTSMIFLQYGQIDVLDGAFVLIDKTGVRTHIPVGSVACIMLEPGTRVSHAAVHLASTVGTLLVWVGEAGVRVYSSGQPGGARADKLLYQAKLALDDDLRLKVVRKMYELRFREPPPARRSVEQLRGIEGSRVRATYALLAKQYGVKWHGRNYDPKDWEKGDVVNRCISAATSCLYGISEAAILAAGYAPAIGFIHSGKPLSFVYDIADIIKFESVVPKAFEIAARHPAEPDKEVRLACRDIFRSSKLTGKLIPLIEEVLAAGEIEPPQPAPDMLPPAIPEPESLGDSGHRGHG
>NC_012125.1|WP_000281476.1|3012548_3013199_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MYLSRITLHTSELSPAQLLHLVECGEYVMHQWLWDLFPGGKERQFLYRREELQGAFRFFVLSQEQPAASAIFDVQTRPFAPMLSAGQTLRFNLRANPTVCKNGKRHDLLMEAKRQRKTQGDSQDIWSYQQQAALTWLARQVEQNGFTLRETSVDAYRQQQIRREKSRQMIQFSSVDYTGVLVLNDPVLFLQRLAQGYGKSRAFGCGMMMIKPGDDA
>NC_012125.1|WP_000085112.1|3013180_3013927_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MSQYLVFQLHGPMASWGVDAPGEVRHSHELPSRSALLGLLAAALGIRRDEEERLNAFNRHYQFLLCASGNPRWARDYHTVQMPKEVRKARYFSRREELQDPELLSALISRRDYYTDAWWMIAVSATPDAPYTLAQLQASLQHPVFPLYLGRKSHPLALPLAPQLLEGSAADVLREAYRWYQDQFNALKLPLPRLQNECWWEGEHDGLTASKILRRRDMPLSRQQWLFGERSVNQGPWLRKEDACISQE
>NC_012125.1|WP_000206408.1|3013937_3014996_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYPAANLNRDDTGAPKNVVLGGATRLRISSQSLKRAWRTSELFEQALAGNIGIRSGRIAREAAQILIESGIDAKKAVEYVKNIANYFGKVKAEKKPKDELTNAETGQLVHISPAEFEGVKALAHRLAEEKRAPKEEELALLRKDRMAVDIAMFGRMLAEKTDFNVEAACQVAHAFGVSETIVEDDFFTAVDDLRQASAEDAGAGHLGETGFGSALFYTYICINKDLLVKNLNDNEELANKTLRAFTEAALKVSPTGKQNSFASRAYASWALAEKGTDQPRSLAAAFYEPINGTDQLNVAVKRITSLHKNMNKVYGQRTDTASFDVMNQQGSMEDVLDFICA
>NC_012125.1|WP_000029526.1|3015009_3015558_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSIVQEDHKATLRKWHEDLQEKRGARASLRRSKTVNEACLSEGFHLLLMQTHSLWKNKADWHVTALAITAVLAAHIKFIDERQSFATQLGQKKSGDNPVMSKLRFSRLSAVKNPDELLRHLRRAVQLLDGSVNLISLADDIFRWCQEQDDLLNHHRRQQRPTEFLRIRWALEYYQAGDNEQD
>NC_012125.1|WP_000368587.1|3015554_3017114_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MDNFSLLTTPWLPVRFKDGSTGKLAPVNLADENVVDIAATRADLQGAAWQFLLGLLQCSIAPKRYKNWEDIWFDGLHADALHKALAPLEHAFQFGAETPSFMQDFEELPDNKITIASLLPETPGIQTTELNTDHFIKRGVMECFCPHCAALALFSMQLNAPSGGQGYRTGLRGGGPLTTLIELQEYQGERQTPLWRKLWLNVMPQDAADLPLPVVYDAAVFPWLAATRTSEPPAHTITTDEQVNKLQAYWGMPRRIRLDFATIRQGVCNICGNNSDELLIQMLVKNYGVNYDRWRHPLTPHRLQIKNSKGFEPVITQPGGLLWRDWLGLSQENPTEKNTEYPAQVIKVFNARELRNIKVGLWGFGADFKKMKIRCWYEHHFPLLMTEGLIPDLRKATQTATRLLSLLRSALKEAWFSNAKGARGDFSFIDIDFWNLTQGRFLNLIHDLENGHKPDERLNKWQRELWLFTRCYFDDHVFTNPYESSDLERIMKARKKYFTSSAEKQSAKAAKAKKQEAAE
>NC_012125.1|WP_000029744.1|3017125_3019789_-|CRISPR-associated-helicase/endonuclease-Cas3
MSIYHYWGKSRRGETNGGDDYHLLCWHSLDVAAVGYWMVINNIYFIDHYLKKLGIQDKEQAAQFFAWILCWHDIGKFAHSFQQLYRHEALNIFNEPTRHYEKIAHTTLGYMLWNSWLSECPELFPPSLLSVRKSKRVMALWMPVTTGHHGRPPEAIQELDHFRQQDKDAARDFLLRIKALFPLITLPEAWDEDEGIDQFQQLSWFISAAVVLADWTGSASRYFPRTAEKMPVDTYWQQALAKAQTAITLFPSAANVSAFTGIETLFPFIQHPTPLQQKALELDINVDGAQLFILEDVTGAGKTEAALILAHRLMAAGKAQGLYFGLPTMATANAMFERMANTWLALYQPDSRPSLILAHSARRLMDRFNQSIWSVTLSGTEEPDEAQPDSQGCAAWFADSNKKALLAEVGVGTLDQAMMAVMPFKHNNLRLLGLSNKILLADEIHACDAWMSRILEGLIERQASNGNATILLSATLSQQQRDKLVAAFSRGVRRSVQAPLLGHDDYPWLTQVTQTELISQRVDTRKEVERSVDIGWLHSEEACLERIGEAVEKGNCIAWIRNSVDDAIRIYRQLQLSKVVATENLLLFHSRFAFHDRQRIESQTLNLFGKQSGAQRAGKVIIATQVIEQSLDIDCDEMISDLAPVDLLIQRAGRLQRHIRDRNGLVKKSGQDERETPVLRILAPEWDDAPRENWLSSAMRNSAYVYPDHGRMWLTQRILREQGTIRMPQSARLLIESVYGEDVNMPVGFAKTEQLQKGKFYCDRAFARQMLLNFAPGYCAEISDSLPEKMSTRLAEESVTLWLAKIVDGVVTPYTSGEHAWEMSVLRVRQSWWNKHKDEFEKLDGEPLRKWCAQQHQDKDFATVIVVTDCAACGYSANEGLIGMMGE
>NC_012125.1|WP_024131732.1|3020233_3021187_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRLAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGSKMTWHPELLQESISTLRKEVTGNAQIKTAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLACINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHSYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NC_012125.1|WP_001290656.1|3022083_3023796_-|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit
MSEKHPGPLVVEGKLSDAERMKLESNYLRGTIAEDLNDGLTGGFKGDNFLLIRFHGMYQQDDRDIRAERAAQKLEPRHAMLLRCRLPGGVITTTQWQAIDKFAADNTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQEKVATTDEEPILGATYLPRKFKTTVVIPPQNDIDLHANDMNFVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGVDTFKEEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDNNWHLTLFIENGRILDYPGRPLKTGLLEIAKIHQGEFRITANQNLIIASVPESQKAKIEKLARDHGLMNAVSAQRENSMACVSFPTCPLAMAEAERFLPSFTDKVEAILEKHGIPDEHIVMRVTGCPNGCGRAMLAEIGLVGKAPGRYNLHLGGNRIGTRIPRMYQENITEPDILASLDQLIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDFWE

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Crispr_ID: NC_012125_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012125_2

3028681-3029258

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	PILER-CR

9 spacers

cas3,cas8e,cse2gr11,cas7

The CRISPR arrays of NC_012125_2

>merge|NC_012125|2|3028681-3029258|CRISPRCasFinder,CRT,PILER-CR
ACGGCTATCCTTGTTGGCGCGGGGAACACGGCTACACGCAAAAATTCCAGTCGTTGGCGCACGGTTTATCCCCGCTGGCGCGGGGAACACCCGATTAAGATCCGCAGTCTGCATCAGTAACTCGGTTTATCCCCGCTGGCGAGGGGAACACTTCCCCTCCGGATGGCGGGGATGCTCTTATGGCAGTTTATCCCCGCTGGCGCGGGGAACACTATGCCGCCCCGGCGTACAGCGACAGGCGGGCCGGTTTATCCCCGCTGGTGCGGGGAACACGGCCGTCTGCATTGAGCGCAGTTTTAACGCGTCGGTTTATCCCCGCTGGCGCGGGGAACACTGCGCCACGCCTATACCATCCGAGTTTTGAGCCGGTTTATCCCCGCTGGCGCGGGGAACACTCTTCCGGTGGGTTTTCTTGTCCGTCGATGGCCGGTTTATCCCCGCTGGCGCGGGGAACACATCTAACCGGCTGCAATGCTCAGGCATTACAGCGGTTTATCCCCGCTGGCGCGGGGAACACGGTGTGCCAATGGACAATACAAAGCATTTTCGCGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_012125|2|2|3028681-3029258|CRISPRCasFinder
ACGGCTATCCTTGTTGGCGCGGGGAACAC	GGCTACACGCAAAAATTCCAGTCGTTGGCGCA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACT
CGGTTTATCCCCGCTGGCGAGGGGAACAC	TTCCCCTCCGGATGGCGGGGATGCTCTTATGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	TATGCCGCCCCGGCGTACAGCGACAGGCGGGC
CGGTTTATCCCCGCTGGTGCGGGGAACAC	GGCCGTCTGCATTGAGCGCAGTTTTAACGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGCGCCACGCCTATACCATCCGAGTTTTGAGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCTTCCGGTGGGTTTTCTTGTCCGTCGATGGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATCTAACCGGCTGCAATGCTCAGGCATTACAG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GGTGTGCCAATGGACAATACAAAGCATTTTCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_012125|2|2|3028681-3029258|CRT
ACGGCTATCCTTGTTGGCGCGGGGAACAC	GGCTACACGCAAAAATTCCAGTCGTTGGCGCA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACT
CGGTTTATCCCCGCTGGCGAGGGGAACAC	TTCCCCTCCGGATGGCGGGGATGCTCTTATGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	TATGCCGCCCCGGCGTACAGCGACAGGCGGGC
CGGTTTATCCCCGCTGGTGCGGGGAACAC	GGCCGTCTGCATTGAGCGCAGTTTTAACGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGCGCCACGCCTATACCATCCGAGTTTTGAGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCTTCCGGTGGGTTTTCTTGTCCGTCGATGGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATCTAACCGGCTGCAATGCTCAGGCATTACAG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GGTGTGCCAATGGACAATACAAAGCATTTTCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_012125|2|2|3028742-3029258|PILER-CR
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACT
CGGTTTATCCCCGCTGGCGAGGGGAACAC	TTCCCCTCCGGATGGCGGGGATGCTCTTATGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	TATGCCGCCCCGGCGTACAGCGACAGGCGGGC
CGGTTTATCCCCGCTGGTGCGGGGAACAC	GGCCGTCTGCATTGAGCGCAGTTTTAACGCGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGCGCCACGCCTATACCATCCGAGTTTTGAGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCTTCCGGTGGGTTTTCTTGTCCGTCGATGGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATCTAACCGGCTGCAATGCTCAGGCATTACAG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GGTGTGCCAATGGACAATACAAAGCATTTTCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012125.1\|WP_001079644.1\|3040174_3040711_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185168
NC_012125.1\|WP_000029744.1\|3017125_3019789_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124
NC_012125.1\|WP_000036734.1\|3030361_3031660_-\|phosphopyruvate-hydratase	unknown	unknown	gnl\|CDD\|234617
NC_012125.1\|WP_000029526.1\|3015009_3015558_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NC_012125.1\|WP_000210451.1\|3033607_3034408_-\|nucleoside-triphosphate-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|236569
NC_012125.1\|WP_000210926.1\|3023795_3025595_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	unknown	unknown	gnl\|CDD\|182862
NC_012125.1\|WP_000832396.1\|3039707_3040178_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185179
NC_012125.1\|WP_001290656.1\|3022083_3023796_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	unknown	unknown	gnl\|CDD\|237402
NC_012125.1\|WP_000210863.1\|3031742_3033380_-\|CTP-synthase-(glutamine-hydrolyzing)	unknown	unknown	gnl\|CDD\|235437
NC_012125.1\|WP_000368587.1\|3015554_3017114_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|274192
NC_012125.1\|WP_001199961.1\|3029554_3030226_-\|7-carboxy-7-deazaguanine-synthase-QueE	unknown	unknown	gnl\|CDD\|275126
NC_012125.1\|WP_000206408.1\|3013937_3014996_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|273843
NC_012125.1\|WP_001044459.1\|3038393_3039167_+\|fimbria/pilus-periplasmic-chaperone	unknown	unknown	gnl\|CDD\|185177
NC_012125.1\|WP_001540810.1\|3026470_3027268_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|224158
NC_012125.1\|WP_000178258.1\|3039186_3039693_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185178
NC_012125.1\|WP_000842512.1\|3035014_3035602_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185169
NC_012125.1\|WP_024131732.1\|3020233_3021187_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NC_012125.1\|WP_086011253.1\|3027375_3028631_+\|IS3-like-element-ISSen1-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_012125.1\|WP_000981804.1\|3035681_3038381_+\|fimbrial-biogenesis-outer-membrane-usher-protein	unknown	unknown	gnl\|CDD\|185176
NC_012125.1\|WP_000108313.1\|3026018_3026381_+\|6-carboxytetrahydropterin-synthase-QueD	unknown	unknown	gnl\|CDD\|238264

Protein	Function_ID	Function_description	E-value
NC_012125.1\|WP_001079644.1\|3040174_3040711_+\|fimbrial-protein	gnl\|CDD\|185168	PRK15260, PRK15260, fimbrial protein SteF; Provisional.	3.83046e-121
NC_012125.1\|WP_000029744.1\|3017125_3019789_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	0
NC_012125.1\|WP_000036734.1\|3030361_3031660_-\|phosphopyruvate-hydratase	gnl\|CDD\|234617	PRK00077, eno, enolase; Provisional.	0
NC_012125.1\|WP_000029526.1\|3015009_3015558_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	8.80691e-33
NC_012125.1\|WP_000210451.1\|3033607_3034408_-\|nucleoside-triphosphate-pyrophosphohydrolase	gnl\|CDD\|236569	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed.	3.42454e-158
NC_012125.1\|WP_000210926.1\|3023795_3025595_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	gnl\|CDD\|182862	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit.	0
NC_012125.1\|WP_000832396.1\|3039707_3040178_+\|fimbrial-protein	gnl\|CDD\|185179	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional.	1.41178e-100
NC_012125.1\|WP_001290656.1\|3022083_3023796_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	gnl\|CDD\|237402	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit.	0
NC_012125.1\|WP_000210863.1\|3031742_3033380_-\|CTP-synthase-(glutamine-hydrolyzing)	gnl\|CDD\|235437	PRK05380, pyrG, CTP synthetase; Validated.	0
NC_012125.1\|WP_000368587.1\|3015554_3017114_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|274192	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family, represented by CT1972 from Chlorobium tepidum, is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It is designated Cse1.	2.75345e-173
NC_012125.1\|WP_001199961.1\|3029554_3030226_-\|7-carboxy-7-deazaguanine-synthase-QueE	gnl\|CDD\|275126	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE. Members of this radical SAM domain protein family appear to be the E. coli form of the queuosine biosynthesis protein QueE. QueE is involved in making preQ0 (7-cyano-7-deazaquanine), a precursor of both the bacterial/eukaryotic modified tRNA base queuosine and the archaeal modified base archaeosine. Members occur in species that lack known forms of QueE but usually are not found in queuosine biosynthesis operons. Members of this family tend to form bi-directional best hit matches to members of known (TIGR03365) and putative (TIGR03963) QueE families from other lineages.	1.43874e-155
NC_012125.1\|WP_000206408.1\|3013937_3014996_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|273843	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum and is part of the Ecoli subtype of CRISPR/Cas locis. It is designated Cse4, for CRISPR/Cas Subtype Ecoli protein 4.	8.05003e-136
NC_012125.1\|WP_001044459.1\|3038393_3039167_+\|fimbria/pilus-periplasmic-chaperone	gnl\|CDD\|185177	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional.	0
NC_012125.1\|WP_001540810.1\|3026470_3027268_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|224158	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only].	1.65501e-102
NC_012125.1\|WP_000178258.1\|3039186_3039693_+\|fimbrial-protein	gnl\|CDD\|185178	PRK15275, PRK15275, putative fimbrial protein SteD; Provisional.	1.6337e-105
NC_012125.1\|WP_000842512.1\|3035014_3035602_+\|fimbrial-protein	gnl\|CDD\|185169	PRK15261, PRK15261, fimbrial protein SteA; Provisional.	5.36845e-100
NC_012125.1\|WP_024131732.1\|3020233_3021187_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NC_012125.1\|WP_086011253.1\|3027375_3028631_+\|IS3-like-element-ISSen1-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	4.95671e-41
NC_012125.1\|WP_000981804.1\|3035681_3038381_+\|fimbrial-biogenesis-outer-membrane-usher-protein	gnl\|CDD\|185176	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein.	0
NC_012125.1\|WP_000108313.1\|3026018_3026381_+\|6-carboxytetrahydropterin-synthase-QueD	gnl\|CDD\|238264	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a carrier-mediated active transport system. Most microbes and plants lack this system and must synthesize folates de novo from guanosine triphosphate. One enzyme from this pathway is PTPS which catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin. The functional enzyme is a hexamer of identical subunits.	2.78454e-58

>NC_012125.1|WP_086011253.1|3027375_3028631_+|IS3-like-element-ISSen1-family-transposase
MMTEFKRTQRDYPLSFKIAVVEQVEKGEMTYKQAQQRYGIQGRSTVLVWLRKYGRLDWRPGLPDLVKRKLPVAQTTIPLTPEQRIRELEEQLELANQKAEFFESVINVLKNDYGVSVGKKAARQVLTQSQAPKITVTRACQFLGHSRQAWYQYNTRCNKRQEHHAQVLDFVARTRCRQPRIGTRKLHYLLNMQADKTLNIGRDRLFNLLGEYRLLVPVKRAYHKTTNSHHRFYRHPNLLKPGPEQVTALEPEQVWVADITYLPLRSGTAYLSLVTDACSRKIVGYHVGENLQTENVVKAFRQALRRRKTTGPLVHHSDRGLQYCSVLYQSVHERNGITCSMTDGYDCYQNALAERINGILKNEFLLSRPADLEQAREIVKESVAIYNHERPHQALKYKTPDDVHQAFYRQKTVNLYQD
>NC_012125.1|WP_001540810.1|3026470_3027268_-|MBL-fold-metallo-hydrolase
MALRIRVLLENHKGAGADKSLKARPGLSLLVEDESTSILFDTGPDGSFMQNALAMGIDLSDVSAVVLSHGHYDHCGGVPWLPDNSRIICHPDIARERYAAMTFLGITRKIKKLSCEVDYSRYRMMYTRDPLPIGENFIWSGEIPVVAPEAYGIFGGHDAEPDSILDEGVLIYQSTKGLVIITGCGHRGIANIVRHCQNITGIKRIYALVGGFHLRCASPFTLWRVRRFLQEHKPEKLCGCHCTGAWGRLWLPEITAPATGDVLRF
>NC_012125.1|WP_000108313.1|3026018_3026381_+|6-carboxytetrahydropterin-synthase-QueD
MSTTLYKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIMDFADLKAAFKPTYDRLDHYYLNDIPGLSNPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCVYRGE
>NC_012125.1|WP_000210926.1|3023795_3025595_-|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit
MTTPAPLTGLLPLNPEQLARLQAATTDLTPEQLAWVSGYFWGVLNPRSGAVAVTPVPERKMPGVTLISASQTGNARRVAEALRDDLLAANLNVTLVNAGDYKFKQIASEKLLVIVTSTQGEGEPPEEAVALHKFLFSKKAPKLENTAFAVFSLGDTSYEFFCQSGKDFDSKLAELGGERLLDRVDADVEYQAAASEWRARVVDVLKSRAPVAAPSQSVATGAVNDIHTSPYTKDAPLIATLSVNQKITGRNSEKDVRHIEIDLGDSGLRYQPGDALGVWYQNDPALVKELVELLWLKGDEPVTVDGKTLPLAEALEWHFELTVNTANIVENYATLTRSESLLPLVGDKAQLQHYAATTPIVDMVRFSPAQLDAEALIGLLRPLTPRLYSIASAQAEVESEVHVTVGVVRYDIEGRARAGGASSFLADRVEEEGEVRVFIEHNDNFRLPANPQTPVIMIGPGTGIAPFRAFMQQRAAEGAEGKNWLFFGNPHFTEDFLYQVEWQRYVKEGMLNRIDLAWSRDQKEKIYVQDKLREQGAELWRWINDGAHIYVCGDARRMAADVEKALLEVIAEFGAMDIEAADEFLSELRVERRYQRDVY
>NC_012125.1|WP_001290656.1|3022083_3023796_-|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit
MSEKHPGPLVVEGKLSDAERMKLESNYLRGTIAEDLNDGLTGGFKGDNFLLIRFHGMYQQDDRDIRAERAAQKLEPRHAMLLRCRLPGGVITTTQWQAIDKFAADNTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQEKVATTDEEPILGATYLPRKFKTTVVIPPQNDIDLHANDMNFVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGVDTFKEEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDNNWHLTLFIENGRILDYPGRPLKTGLLEIAKIHQGEFRITANQNLIIASVPESQKAKIEKLARDHGLMNAVSAQRENSMACVSFPTCPLAMAEAERFLPSFTDKVEAILEKHGIPDEHIVMRVTGCPNGCGRAMLAEIGLVGKAPGRYNLHLGGNRIGTRIPRMYQENITEPDILASLDQLIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDFWE
>NC_012125.1|WP_024131732.1|3020233_3021187_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRLAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGSKMTWHPELLQESISTLRKEVTGNAQIKTAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLACINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHSYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NC_012125.1|WP_000029744.1|3017125_3019789_-|CRISPR-associated-helicase/endonuclease-Cas3
MSIYHYWGKSRRGETNGGDDYHLLCWHSLDVAAVGYWMVINNIYFIDHYLKKLGIQDKEQAAQFFAWILCWHDIGKFAHSFQQLYRHEALNIFNEPTRHYEKIAHTTLGYMLWNSWLSECPELFPPSLLSVRKSKRVMALWMPVTTGHHGRPPEAIQELDHFRQQDKDAARDFLLRIKALFPLITLPEAWDEDEGIDQFQQLSWFISAAVVLADWTGSASRYFPRTAEKMPVDTYWQQALAKAQTAITLFPSAANVSAFTGIETLFPFIQHPTPLQQKALELDINVDGAQLFILEDVTGAGKTEAALILAHRLMAAGKAQGLYFGLPTMATANAMFERMANTWLALYQPDSRPSLILAHSARRLMDRFNQSIWSVTLSGTEEPDEAQPDSQGCAAWFADSNKKALLAEVGVGTLDQAMMAVMPFKHNNLRLLGLSNKILLADEIHACDAWMSRILEGLIERQASNGNATILLSATLSQQQRDKLVAAFSRGVRRSVQAPLLGHDDYPWLTQVTQTELISQRVDTRKEVERSVDIGWLHSEEACLERIGEAVEKGNCIAWIRNSVDDAIRIYRQLQLSKVVATENLLLFHSRFAFHDRQRIESQTLNLFGKQSGAQRAGKVIIATQVIEQSLDIDCDEMISDLAPVDLLIQRAGRLQRHIRDRNGLVKKSGQDERETPVLRILAPEWDDAPRENWLSSAMRNSAYVYPDHGRMWLTQRILREQGTIRMPQSARLLIESVYGEDVNMPVGFAKTEQLQKGKFYCDRAFARQMLLNFAPGYCAEISDSLPEKMSTRLAEESVTLWLAKIVDGVVTPYTSGEHAWEMSVLRVRQSWWNKHKDEFEKLDGEPLRKWCAQQHQDKDFATVIVVTDCAACGYSANEGLIGMMGE
>NC_012125.1|WP_000368587.1|3015554_3017114_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MDNFSLLTTPWLPVRFKDGSTGKLAPVNLADENVVDIAATRADLQGAAWQFLLGLLQCSIAPKRYKNWEDIWFDGLHADALHKALAPLEHAFQFGAETPSFMQDFEELPDNKITIASLLPETPGIQTTELNTDHFIKRGVMECFCPHCAALALFSMQLNAPSGGQGYRTGLRGGGPLTTLIELQEYQGERQTPLWRKLWLNVMPQDAADLPLPVVYDAAVFPWLAATRTSEPPAHTITTDEQVNKLQAYWGMPRRIRLDFATIRQGVCNICGNNSDELLIQMLVKNYGVNYDRWRHPLTPHRLQIKNSKGFEPVITQPGGLLWRDWLGLSQENPTEKNTEYPAQVIKVFNARELRNIKVGLWGFGADFKKMKIRCWYEHHFPLLMTEGLIPDLRKATQTATRLLSLLRSALKEAWFSNAKGARGDFSFIDIDFWNLTQGRFLNLIHDLENGHKPDERLNKWQRELWLFTRCYFDDHVFTNPYESSDLERIMKARKKYFTSSAEKQSAKAAKAKKQEAAE
>NC_012125.1|WP_000029526.1|3015009_3015558_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSIVQEDHKATLRKWHEDLQEKRGARASLRRSKTVNEACLSEGFHLLLMQTHSLWKNKADWHVTALAITAVLAAHIKFIDERQSFATQLGQKKSGDNPVMSKLRFSRLSAVKNPDELLRHLRRAVQLLDGSVNLISLADDIFRWCQEQDDLLNHHRRQQRPTEFLRIRWALEYYQAGDNEQD
>NC_012125.1|WP_000206408.1|3013937_3014996_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYPAANLNRDDTGAPKNVVLGGATRLRISSQSLKRAWRTSELFEQALAGNIGIRSGRIAREAAQILIESGIDAKKAVEYVKNIANYFGKVKAEKKPKDELTNAETGQLVHISPAEFEGVKALAHRLAEEKRAPKEEELALLRKDRMAVDIAMFGRMLAEKTDFNVEAACQVAHAFGVSETIVEDDFFTAVDDLRQASAEDAGAGHLGETGFGSALFYTYICINKDLLVKNLNDNEELANKTLRAFTEAALKVSPTGKQNSFASRAYASWALAEKGTDQPRSLAAAFYEPINGTDQLNVAVKRITSLHKNMNKVYGQRTDTASFDVMNQQGSMEDVLDFICA
>NC_012125.1|WP_001199961.1|3029554_3030226_-|7-carboxy-7-deazaguanine-synthase-QueE
MQYPINEMFQTLQGEGYFTGVPAIFIRLQGCPVGCAWCDTKHTWDKLSDREVSLFSILAKTKESDKWGAASSEDLLAVINRQGYTARHVVITGGEPCIHDLMPLTDLLEKSGFSCQIETSGTHEVRCTPNTWVTVSPKVNMRGGYDVLSQALERANEIKHPVGRVRDIEALDELLATLSDDKPRVIALQPISQKEDATRLCIETCIARNWRLSMQTHKYLNIA
>NC_012125.1|WP_000036734.1|3030361_3031660_-|phosphopyruvate-hydratase
MSKIVKVIGREIIDSRGNPTVEAEVHLEGGFVGMAAAPSGASTGSREALELRDGDKSRFLGKGVTKAVGAVNGPIAQAILGKDAKDQAGIDKIMIDLDGTENKSNFGANAILAVSLANAKAAAAAKGMPLYEHIAELNGTPGKYSMPVPMMNIINGGEHADNNVDIQEFMIQPVGAKTVKEAIRMGSEVFHHLAKVLKGKGMNTAVGDEGGYAPNLGSNAEALAVIAEAVKAAGYELGKDITLAMDCAASEFYKDGKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEGIEKGIANSILIKFNQIGSLTETLAAIKMAKDAGYTAVISHRSGETEDATIADLAVGTAAGQIKTGSMSRSDRVAKYNQLIRIEEALGEKAPYNGRKEIKGQA
>NC_012125.1|WP_000210863.1|3031742_3033380_-|CTP-synthase-(glutamine-hydrolyzing)
MTTNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFIRTKMSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEGGEGHDVVLVEIGGTVGDIESLPFLEAIRQLAVDIGREHALFMHLTLVPYLAAAGEVKTKPTQHSVKELLSIGIQPDILICRSDRAVPANERAKIALFCNVPEKAVISMKDVDSIYKIPGLLKSQGLDDYICKRFSLNCPEANLSEWEQVIYEEANPAGEVTIGMVGKYIELPDAYKSVIEALKHGGLKNRVTVNIKLIDSQDVETRGVEILKDLDAILIPGGFGYRGVEGKIATARYARENNIPYLGICLGMQVALIEFARNVAGMDNANSTEFVPDCKYPVVALITEWRDEDGNVEVRSEKSDLGGTMRLGAQQCQLSDDSLVRQLYGASTIVERHRHRYEVNNMLLKQIEAAGLRVAGRSGDDQLVEIIEVPNHPWFVACQFHPEFTSTPRDGHPLFAGFVKAANEHQKRQAK
>NC_012125.1|WP_000210451.1|3033607_3034408_-|nucleoside-triphosphate-pyrophosphohydrolase
MTTNHQIDRLLTLMQRLRDPENGCPWDKEQTFASIAPYTLEETYEVLDAIAREDFDDLRGELGDLLFQVVFYAQMAQEEGRFDFNDICAAISDKLERRHPHVFGELSADNSEEALVRWEQIKTEERAQKAQHSALDDIPRSLPALMRAQKIQKRCSNVGFDWTTLGPVVDKVYEEIDEVMFEARQAVVDQAKLEEEMGDLLFATVNMARHLGTKAELALQKANDKFERRFREVERIVAARGLEMTGVDLETMEEVWQEVKRQEIDL
>NC_012125.1|WP_000842512.1|3035014_3035602_+|fimbrial-protein
MKSSHFCKLAVTASLVMGIVSGAQAAGSNTAKVTFLGNIVDSPCSVTLDTEDQTVNMGSSIGNGTLSNGKTTINNARTFHIDLEGCTWATEKNMNVVFTTGSGTTAATGATDNLALMKTDGTGAISNVSLAIGDAGKNNIKLGDTYTQAIADLDGDTILDEKQSLNFTAWLVGAATGTVGTGEFSSAANVTISYL
>NC_012125.1|WP_000981804.1|3035681_3038381_+|fimbrial-biogenesis-outer-membrane-usher-protein
MMNNTWKSVLCPIACGVGMLLSVSPYSASGKDIEFNTDFLDVKNRDNVNIAQFSRKGFILPGVYLLQIKINGQTLPQEFPVNWVIPEHDPQGSEVCAEPELVTQLGIKPELAEKLVWITHGERQCLAPDSLKGMDFQADLGHSTLLVNLPQAYMEYSDVDWDPPARWDNGIPGIILDYNINNQLRHDQESGSEEQSISGNGTLGANLGAWRLRADWQASYDHRDDDENTSTLHDQSWSRYYAYRALPTLGAKLTLGESYLQSDVFDSFNYIGASVVSDDQMLPPKLRGYAPEIVGIARSNAKVKVSWQGRVLYETQVPAGPFRIQDLNQSVSGTLHVTVEEQNGQTQEFDVNTASVPFLTRPGMVRYKMALGRPQDWDHHPITGTFASAEASWGVTNGWSLYGGAIGESNYQAVALGSGKDLGVVGAVAVDITHSIAHMPQDDGFDGETLQGNSYRISYSRDFDEIDSRLTFAGYRFSEKNFMSMSDYLDAKTYHHLNAGHEKERYTVTYNQNFREQGMSAYFSYSRSTFWDSPDQSNYNLSLSWYFDLGSIKNLSASLNGYRSEYNGDKDDGVYISLSVPWGNDSISYNGTFNGSQHRNQLGYSGHSQNGDNWQLHVGQDEQGAQADGYYSHQGALTDIDLSADYEEGSYRSLGMSLRGGMTLTTQGGALHRGSLAGSTRLLVDTDGIADVPVSGNDSPTSTNIFGKAVIADVGSYSRSLARIDLNKLPEKAEATKSVVQITLTEGAIGYRHFDVVSGEKMMAVFRLADGDFPPFGAEVKNERQQQLGLVANDGNAWLAGVKAGETLKVFWDGAAQCEASLPPTFTPELLANALLLPCKILEGQPPTAPQKSSPLPAQPLIQEHTQTDGQPAAPVATTTQTPPIPLADNHAVNRKDME
>NC_012125.1|WP_001044459.1|3038393_3039167_+|fimbria/pilus-periplasmic-chaperone
MNKTNHFKRQALIASVLLAAPLVSHSAIVPDRTRVIFNGNENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQPLPAAASLPQDRESLFYFNVREIPPKSDKPNTLQLALQTRIKFFYRPVAVARQVDKTHPWQTKLTLTYQGDGVIFDNPTPFYLVISNAGSKENETASGFKNLLIAPREKVTSPIKGASLGSSPVVGYVDDYGGHRLLVFTCSGNTCKVNEEKTRDAEKKANK
>NC_012125.1|WP_000178258.1|3039186_3039693_+|fimbrial-protein
MTMLTRWKILVLLCGGFVTGTEAAGTKTVQLELHLVVTQPPPCTIGGASVEFGDVLTTKVGDASQTKPVGYSLNCDGRASDYLKLQIQGTTTTISGEQVLQTSVQGLGIRIQQAGNKQLVPVGITDWLNFTLSGSNGPELEAVPVKEPTTQLAGGDFNASATLVVDYQ
>NC_012125.1|WP_000832396.1|3039707_3040178_+|fimbrial-protein
MKRVLILTLLITQFACADNLTFHGKLINPPACTINNGETLEVSFGSVIIDNIDGVNYLTEIPWTLTCDSSFRDDALTFTLSYLGTATPYSANALTTNVPELGIELQQNGTVFPPGTSLTIDESSLPTLKAVPVKQPGKEPAEGDFEAFATLQVDYQ
>NC_012125.1|WP_001079644.1|3040174_3040711_+|fimbrial-protein
MNRIFQTAGHLIGGVMLWAVCNTLPAATPNVHYSGKLVAGACNLVVDNDTMATVDFHTIGSDNFDASGQTTPVPFTLSLQDCKTALANGVLVTFQGIEDSTLPGLLALEPSSEASGFAIGVEMAAQQPVSINATVGTAFVLKEGITTINLQARLQKYAGEEVMPGEFSGSATVSFEYQ

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	MW013502	Salmonella virus L cI-40 13-am43, complete genome	23028-23059	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	NC_004348	Enterobacteria phage ST64T, complete genome	6214-6245	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	MW013503	Salmonella virus L cII-101, complete genome	23028-23059	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	NC_018275	Salmonella phage vB_SemP_Emek, complete genome	23194-23225	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	AY052766	Salmonella typhimurium bacteriophage ST64T, complete genome	6214-6245	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	MF188997	Salmonella phage vB_SalP_PM43, complete genome	6214-6245	2	0.938
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	CP051275	Salmonella phage SW-37, complete genome	24465-24496	4	0.875
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	NC_028696	Salmonella phage SEN22, complete genome	23234-23265	4	0.875
NC_012125_1	1.3\|3010755\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3010755-3010786	32	MN098327	Klebsiella phage Mulock, complete genome	37823-37854	6	0.812
NC_012125_2	2.4\|3028893\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3028893-3028924	32	NZ_CP029832	Azospirillum ramasamyi strain M2T2B2 plasmid unnamed2, complete sequence	167172-167203	8	0.75
NC_012125_2	2.4\|3028893\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3028893-3028924	32	NC_016586	Azospirillum lipoferum 4B plasmid AZO_p2, complete sequence	405399-405430	8	0.75
NC_012125_2	2.7\|3029076\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3029076-3029107	32	NZ_CP045074	Paracoccus kondratievae strain BJQ0001 plasmid unnamed1, complete sequence	186036-186067	8	0.75
NC_012125_2	2.7\|3029076\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3029076-3029107	32	NZ_CP035092	Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence	610659-610690	8	0.75
NC_012125_2	2.7\|3029076\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3029076-3029107	32	NC_008688	Paracoccus denitrificans PD1222 plasmid 1, complete sequence	204192-204223	8	0.75
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NZ_CP022021	Listeria monocytogenes strain FDA709873-33 plasmid pCFSAN021445, complete sequence	72705-72736	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NZ_CP041212	Listeria monocytogenes strain LMP18-H2446 plasmid pCFSAN074383, complete sequence	56906-56937	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NC_022045	Listeria monocytogenes strain N1-011A plasmid, complete sequence	76500-76531	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NZ_CP014251	Listeria monocytogenes strain CFSAN010068 plasmid pCFSAN010068_01, complete sequence	30149-30180	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NC_003383	Listeria innocua Clip11262 plasmid pLI100, complete sequence	23028-23059	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NZ_MH382833	Listeria welshimeri strain 40/07 plasmid pLIS1, complete sequence	11753-11784	9	0.719
NC_012125_1	1.10\|3011182\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011182-3011213	32	NZ_CP020834	Listeria monocytogenes strain CFSAN004330 plasmid pCFSAN004330, complete sequence	35903-35934	9	0.719
NC_012125_2	2.7\|3029076\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3029076-3029107	32	NZ_CP044425	Paracoccus pantotrophus strain DSM 2944 plasmid pPAN2, complete sequence	144184-144215	9	0.719
NC_012125_1	1.1\|3010633\|32\|NC_012125\|CRISPRCasFinder,CRT	3010633-3010664	32	NC_016113	Streptomyces cattleya NRRL 8057 = DSM 46488 plasmid pSCAT, complete sequence	1151729-1151760	10	0.688
NC_012125_1	1.1\|3010633\|32\|NC_012125\|CRISPRCasFinder,CRT	3010633-3010664	32	NC_017585	Streptomyces cattleya NRRL 8057 = DSM 46488 plasmid pSCATT, complete sequence	661429-661460	10	0.688
NC_012125_2	2.4\|3028893\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3028893-3028924	32	NZ_CP053711	Acetobacteraceae bacterium strain PAMC 26569 plasmid unnamed4, complete sequence	113090-113121	10	0.688
NC_012125_1	1.8\|3011060\|32\|NC_012125\|CRISPRCasFinder,CRT,PILER-CR	3011060-3011091	32	NZ_CP021033	Rhizobium sp. NXC14 plasmid pRspNXC14c, complete sequence	100779-100810	11	0.656

1. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to MW013502 (Salmonella virus L cI-40 13-am43, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

2. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_004348 (Enterobacteria phage ST64T, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

3. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to MW013503 (Salmonella virus L cII-101, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

4. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_018275 (Salmonella phage vB_SemP_Emek, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

5. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to AY052766 (Salmonella typhimurium bacteriophage ST64T, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

6. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to MF188997 (Salmonella phage vB_SalP_PM43, complete genome) position: , mismatch: 2, identity: 0.938

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggccttgtttatcgccagcttttccac	Protospacer
***************************** *.

7. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to CP051275 (Salmonella phage SW-37, complete genome) position: , mismatch: 4, identity: 0.875

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggacttgtttaccgccagcttttctac	Protospacer
******* ********.************ *.

8. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_028696 (Salmonella phage SEN22, complete genome) position: , mismatch: 4, identity: 0.875

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
tggcgggacttgtttatctccagcttttccac	Protospacer
******* ********** ********** *.

9. spacer 1.3|3010755|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to MN098327 (Klebsiella phage Mulock, complete genome) position: , mismatch: 6, identity: 0.812

tggcgggccttgtttatcgccagcttttcaat	CRISPR spacer
ttgcgctgcttgttcaccgccagcttttcaat	Protospacer
* ***   ******.*.***************

10. spacer 2.4|3028893|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP029832 (Azospirillum ramasamyi strain M2T2B2 plasmid unnamed2, complete sequence) position: , mismatch: 8, identity: 0.75

tatgccgccccggcgtacagcgacaggcgggc	CRISPR spacer
tcccccgccgcggcggacagcgacaggccgcg	Protospacer
* . ***** ***** ************ *

11. spacer 2.4|3028893|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_016586 (Azospirillum lipoferum 4B plasmid AZO_p2, complete sequence) position: , mismatch: 8, identity: 0.75

tatgccgccccggcgtacagcgacaggcgggc	CRISPR spacer
tcccccgccgcggcggacagcgacaggccgcg	Protospacer
* . ***** ***** ************ *

12. spacer 2.7|3029076|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP045074 (Paracoccus kondratievae strain BJQ0001 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.75

tcttccggtgggttttcttgtccgtcgatggc	CRISPR spacer
accgacagcgggttttcctgcccgtcgatggc	Protospacer
 *.  *.*.********.**.***********

13. spacer 2.7|3029076|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP035092 (Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.75

tcttccggtgggttttcttgtccgtcgatggc	CRISPR spacer
actgaaagcgggttttcctgcccgtcgatggc	Protospacer
 **   .*.********.**.***********

14. spacer 2.7|3029076|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_008688 (Paracoccus denitrificans PD1222 plasmid 1, complete sequence) position: , mismatch: 8, identity: 0.75

tcttccggtgggttttcttgtccgtcgatggc	CRISPR spacer
actgaaagcgggttttcctgcccgtcgatggc	Protospacer
 **   .*.********.**.***********

15. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP022021 (Listeria monocytogenes strain FDA709873-33 plasmid pCFSAN021445, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

16. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP041212 (Listeria monocytogenes strain LMP18-H2446 plasmid pCFSAN074383, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

17. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_022045 (Listeria monocytogenes strain N1-011A plasmid, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

18. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP014251 (Listeria monocytogenes strain CFSAN010068 plasmid pCFSAN010068_01, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

19. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NC_003383 (Listeria innocua Clip11262 plasmid pLI100, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

20. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_MH382833 (Listeria welshimeri strain 40/07 plasmid pLIS1, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

21. spacer 1.10|3011182|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP020834 (Listeria monocytogenes strain CFSAN004330 plasmid pCFSAN004330, complete sequence) position: , mismatch: 9, identity: 0.719

ccagt--gtgctggagtgaggcgtgaatatgcag	CRISPR spacer
--aatcgttgttggagtgtggcgtgaatatggca	Protospacer
  *.*   **.******* ************  .

22. spacer 2.7|3029076|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP044425 (Paracoccus pantotrophus strain DSM 2944 plasmid pPAN2, complete sequence) position: , mismatch: 9, identity: 0.719

tcttccggtgggttttcttgtccgtcgatggc	CRISPR spacer
accgagagcgggttttcctgcccgtcgatggc	Protospacer
 *.   .*.********.**.***********

23. spacer 1.1|3010633|32|NC_012125|CRISPRCasFinder,CRT matches to NC_016113 (Streptomyces cattleya NRRL 8057 = DSM 46488 plasmid pSCAT, complete sequence) position: , mismatch: 10, identity: 0.688

ttttcagcccttgtcgactgcggaacgcccct	CRISPR spacer
tccctcaccctcgtcgactgcggaccgcccgg	Protospacer
*.... .****.************ *****

24. spacer 1.1|3010633|32|NC_012125|CRISPRCasFinder,CRT matches to NC_017585 (Streptomyces cattleya NRRL 8057 = DSM 46488 plasmid pSCATT, complete sequence) position: , mismatch: 10, identity: 0.688

ttttcagcccttgtcgactgcggaacgcccct	CRISPR spacer
tccctcaccctcgtcgactgcggaccgcccgg	Protospacer
*.... .****.************ *****

25. spacer 2.4|3028893|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP053711 (Acetobacteraceae bacterium strain PAMC 26569 plasmid unnamed4, complete sequence) position: , mismatch: 10, identity: 0.688

tatgccgccccggcgtacagcgacaggcgggc	CRISPR spacer
cgcagttcaccggcgtgctgcgacaggcgggc	Protospacer
.... . * *******.* *************

26. spacer 1.8|3011060|32|NC_012125|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP021033 (Rhizobium sp. NXC14 plasmid pRspNXC14c, complete sequence) position: , mismatch: 11, identity: 0.656

tttcaccctgcctgtagatgcgaggaaaatag	CRISPR spacer
cctcaccgtgcctgttgatgcgaggcggggtc	Protospacer
..***** ******* ********* ...

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

917586 : 993432

Cronobacter_phage(58.54%)

terminase,plate,portal,integrase,capsid,protease,tail,tRNA,head,holin

attL 954907:954922|attR 999449:999464

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_024131660.1\|917586_918639_-\|integrase	tyrosine-type recombinase/integrase	A0A218M4I3	Erwinia_phage	5.2e-106	56.4
WP_000357961.1\|918743_920525_-	AIPR family protein	NA	NA	NA	NA
WP_001008375.1\|920536_921106_-	phage repressor protein CI	A0A1S6KZZ7	Salmonella_phage	5.4e-33	39.8
WP_000460872.1\|921485_921989_+	phage regulatory CII family protein	F1BUN6	Cronobacter_phage	1.7e-59	71.3
WP_000643375.1\|921998_922226_+	DUF2724 domain-containing protein	NA	NA	NA	NA
WP_000996837.1\|922215_922641_+	hypothetical protein	F1BUN5	Cronobacter_phage	2.2e-23	49.6
WP_000022789.1\|922640_923042_+	hypothetical protein	F1BUN2	Cronobacter_phage	1.4e-48	66.9
WP_000057334.1\|923109_923340_+	DUF2732 family protein	NA	NA	NA	NA
WP_000279400.1\|923330_924191_+	Dam family site-specific DNA-(adenine-N6)-methyltransferase	F1BUN1	Cronobacter_phage	1.5e-132	83.5
WP_000170881.1\|924187_926209_+	replication endonuclease	F1BUM9	Cronobacter_phage	3.6e-297	74.6
WP_000960960.1\|926321_926540_+	hypothetical protein	E5G6M0	Salmonella_phage	2.8e-06	49.1
WP_001552031.1\|926513_926837_-	ogr/Delta-like zinc finger family protein	F1BUM8	Cronobacter_phage	8.0e-50	92.3
WP_000038208.1\|926833_927895_-\|portal	phage portal protein	F1BUM7	Cronobacter_phage	2.3e-162	77.1
WP_001151943.1\|927891_929667_-	hypothetical protein	F1BUM5	Cronobacter_phage	6.3e-290	82.8
WP_000018801.1\|929827_930631_+\|capsid	GPO family capsid scaffolding protein	F1BUM4	Cronobacter_phage	9.1e-79	56.4
WP_000550496.1\|930692_931715_+\|capsid	phage major capsid protein, P2 family	F1BUM2	Cronobacter_phage	1.1e-158	81.2
WP_001218537.1\|931718_932420_+\|terminase	terminase	F1BUM0	Cronobacter_phage	9.4e-88	66.8
WP_001680743.1\|932516_932969_+\|head	head completion/stabilization protein	F1BUL8	Cronobacter_phage	1.6e-64	82.7
WP_000084220.1\|932965_933472_+\|tail	phage tail protein	F1BUL7	Cronobacter_phage	5.2e-64	69.8
WP_000220203.1\|934172_935300_+	DUF2586 family protein	F1BUL5	Cronobacter_phage	1.9e-175	83.7
WP_000166743.1\|935296_935752_+	DUF2597 family protein	F1BUL4	Cronobacter_phage	1.5e-57	72.2
WP_001154425.1\|935761_936055_+\|holin	phage holin family protein	C7BGD7	Burkholderia_phage	1.3e-14	46.2
WP_000175560.1\|936051_936393_+	M15 family metallopeptidase	F1BUL3	Cronobacter_phage	2.2e-50	91.1
WP_000376370.1\|936392_936725_+	hypothetical protein	F1BUL2	Cronobacter_phage	6.7e-36	70.9
WP_000411339.1\|936871_937129_+\|tail	putative phage tail assembly chaperone	A5X9I7	Aeromonas_virus	3.6e-21	63.4
WP_000811084.1\|937316_939287_+\|tail	phage tail tape measure protein	F1BUK9	Cronobacter_phage	7.1e-258	67.9
WP_001002797.1\|939283_939613_+	DUF2590 family protein	F1BUK8	Cronobacter_phage	3.8e-39	72.4
WP_000136928.1\|939609_940794_+\|plate	baseplate J/gp47 family protein	F1BUK6	Cronobacter_phage	1.7e-177	78.1
WP_001001824.1\|940786_941374_+	hypothetical protein	F1BUK5	Cronobacter_phage	1.1e-89	82.1
WP_000122988.1\|943553_944108_+\|tail	tail fiber assembly protein	S4TUB9	Salmonella_phage	1.8e-94	93.9
WP_000267958.1\|944097_944823_+	hypothetical protein	F1BUK1	Cronobacter_phage	3.8e-68	56.8
WP_000200787.1\|944794_945340_+	hypothetical protein	F1BUJ9	Cronobacter_phage	4.3e-64	72.5
WP_000977531.1\|945339_947043_+	hypothetical protein	F1BUJ7	Cronobacter_phage	4.4e-224	81.4
WP_001229273.1\|947564_948062_-	zinc ribbon domain-containing protein	NA	NA	NA	NA
WP_001024852.1\|948378_950064_-	aspartate:alanine antiporter	NA	NA	NA	NA
WP_000680850.1\|950334_950712_+	inner membrane protein YbjM	NA	NA	NA	NA
WP_001259135.1\|951175_951466_+	YbjC family protein	NA	NA	NA	NA
WP_000075298.1\|951449_952172_+	nitroreductase NfsA	NA	NA	NA	NA
WP_000684361.1\|952229_953132_+	30S ribosomal protein S6--L-glutamate ligase	A0A1D7SR78	Cyanophage	3.5e-34	34.0
WP_000624809.1\|953228_953705_+	YbjN domain-containing protein	NA	NA	NA	NA
WP_000125769.1\|954053_955166_+	spermidine/putrescine ABC transporter substrate-binding protein PotF	NA	NA	NA	NA
954907:954922	attL	NA	NA	NA	NA
WP_001000698.1\|955253_956387_+	putrescine ABC transporter ATP-binding subunit PotG	G3M9Y6	Bacillus_virus	6.5e-30	34.9
WP_000105453.1\|956396_957350_+	putrescine ABC transporter permease PotH	NA	NA	NA	NA
WP_001061620.1\|957346_958192_+	putrescine ABC transporter permease PotI	NA	NA	NA	NA
WP_000505788.1\|958265_958739_+	YbjO family protein	NA	NA	NA	NA
WP_001149779.1\|958781_959912_+	23S rRNA (uracil(747)-C(5))-methyltransferase RlmC	A0A1X9I6F4	Streptococcus_phage	2.8e-25	26.7
WP_000399323.1\|960194_961538_+	PTS sugar transporter subunit IIC	NA	NA	NA	NA
WP_000655399.1\|961567_961888_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA
WP_000644018.1\|961897_963385_+	sulfatase-like hydrolase/transferase	NA	NA	NA	NA
WP_000737538.1\|963602_964334_-	ABC transporter substrate-binding protein ArtJ	NA	NA	NA	NA
WP_000895396.1\|964570_965239_-	arginine ABC transporter permease ArtM	NA	NA	NA	NA
WP_001001677.1\|965238_965955_-	arginine ABC transporter permease ArtQ	NA	NA	NA	NA
WP_000756588.1\|965961_966693_-	arginine ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_000027185.1\|966710_967439_-	arginine ABC transporter ATP-binding protein ArtP	G9BWD6	Planktothrix_phage	6.7e-28	35.8
WP_001270724.1\|967668_968184_-	lipoprotein	NA	NA	NA	NA
WP_050767917.1\|968282_968636_+	heavy metal-binding domain-containing protein	NA	NA	NA	NA
WP_001202283.1\|968632_969463_+	N-acetylmuramoyl-L-alanine amidase	A0A1B0UZW5	Roseobacter_phage	2.3e-08	30.7
WP_000866897.1\|969459_970473_-	NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_000069000.1\|970568_972002_-	SDR family oxidoreductase	NA	NA	NA	NA
WP_000566422.1\|972012_973014_-	low-specificity L-threonine aldolase	NA	NA	NA	NA
WP_000815325.1\|973052_974771_-	ubiquinone-dependent pyruvate dehydrogenase	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	7.1e-28	24.0
WP_001667939.1\|974928_975897_-	NADH oxidoreductase	NA	NA	NA	NA
WP_000458777.1\|975908_977561_-	hydroxylamine reductase	NA	NA	NA	NA
WP_000491118.1\|977704_978604_-	lysine exporter LysO family protein	NA	NA	NA	NA
WP_000599770.1\|978805_980464_+	ATP-dependent endonuclease	NA	NA	NA	NA
WP_012664443.1\|980460_981411_-	VirK/YbjX family protein	NA	NA	NA	NA
WP_000125882.1\|982667_984614_+	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	1.6e-39	43.1
WP_000447499.1\|984743_984965_-	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	9.3e-18	64.2
WP_000520789.1\|985288_985609_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	4.5e-13	45.7
WP_000934064.1\|985639_987916_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	6.2e-165	42.3
WP_001117984.1\|988128_988326_-	hypothetical protein	NA	NA	NA	NA
WP_001539594.1\|988487_988865_-\|integrase	integrase	A0A077KET4	Ralstonia_phage	1.2e-20	41.0
WP_000097893.1\|989529_990207_-	hydrolase	NA	NA	NA	NA
WP_000809969.1\|990226_991087_-	pirin family protein	NA	NA	NA	NA
WP_000597928.1\|991195_992107_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_001040187.1\|992197_992416_-	translation initiation factor IF-1	NA	NA	NA	NA
WP_001539595.1\|992343_992727_-	membrane protein	NA	NA	NA	NA
WP_001241650.1\|992727_993432_-\|tRNA	leucyl/phenylalanyl-tRNA--protein transferase	NA	NA	NA	NA
999449:999464	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1061419 : 1108716

Salmonella_phage(65.0%)

plate,lysis,tail,head,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001262312.1\|1061419_1062712_-	DUF3596 domain-containing protein	S4TSP2	Salmonella_phage	8.5e-252	99.8
WP_000065276.1\|1062756_1063005_-	excisionase family protein	S4TND0	Salmonella_phage	4.7e-42	100.0
WP_001237031.1\|1063045_1063285_-	DUF4060 family protein	S4TR31	Salmonella_phage	2.0e-37	100.0
WP_077906306.1\|1063327_1064485_-	recombinase RecT	S4TTE8	Salmonella_phage	1.8e-216	99.5
WP_000017137.1\|1064447_1067375_-	PD-(D/E)XK nuclease-like domain-containing protein	S4TNL0	Salmonella_phage	0.0e+00	99.8
WP_001539619.1\|1067501_1067852_-	hypothetical protein	S4TSN6	Salmonella_phage	1.1e-60	97.4
WP_000551854.1\|1067873_1068044_-	hypothetical protein	K7PGY4	Enterobacteria_phage	3.3e-07	51.0
WP_000373338.1\|1068442_1068649_+	hypothetical protein	K7P7I0	Enterobacteria_phage	1.6e-16	67.6
WP_000997167.1\|1068681_1069614_-	hypothetical protein	K7PGT0	Enterobacteria_phage	9.6e-88	53.2
WP_001170496.1\|1069610_1070084_-	hypothetical protein	K7PLT9	Enterobacteria_phage	2.3e-53	59.1
WP_001151473.1\|1070234_1070702_-	helix-turn-helix domain-containing protein	K7PHG0	Enterobacteria_phage	3.0e-66	83.9
WP_000145711.1\|1070715_1070943_+	helix-turn-helix domain-containing protein	K7PKS2	Enterobacteria_phage	1.5e-34	95.9
WP_015702794.1\|1070908_1071283_+	hypothetical protein	S4TTD7	Salmonella_phage	3.3e-63	98.4
WP_000024045.1\|1071374_1072202_+	replication protein	K7PGT1	Enterobacteria_phage	8.3e-51	48.5
WP_000801767.1\|1072198_1072894_+	hypothetical protein	G8C7U6	Escherichia_phage	1.5e-56	45.9
WP_000664367.1\|1072907_1073705_+	hypothetical protein	A0A1R3Y5Q8	Salmonella_virus	1.7e-32	81.9
WP_001217669.1\|1074225_1074459_+	DinI family protein	H6WRY5	Salmonella_phage	5.6e-37	100.0
WP_014343878.1\|1074575_1074824_+	hypothetical protein	A0A0U2C0C8	Salmonella_phage	1.6e-42	100.0
WP_000929798.1\|1074858_1075461_+	DUF1367 family protein	S4TTI0	Salmonella_phage	1.7e-109	99.5
WP_001096557.1\|1075669_1076281_+	recombination protein NinG	A0A0M4RU10	Salmonella_phage	3.6e-91	96.1
WP_001617856.1\|1076277_1076424_+	YlcG family protein	A0A0M5M7B2	Salmonella_phage	4.3e-19	97.9
WP_001047630.1\|1076413_1077211_+	antitermination protein	A0A0M4S661	Salmonella_phage	4.0e-151	99.6
WP_024131667.1\|1077382_1077592_+	hypothetical protein	H6WRZ2	Salmonella_phage	3.5e-22	98.1
WP_000798706.1\|1077756_1078206_-	lipoprotein	NA	NA	NA	NA
WP_001539630.1\|1078566_1079253_-	PipA/GogA/GtgA family type III secretion system effector	Q9MBM0	Phage_Gifsy-2	1.8e-131	99.1
WP_077905918.1\|1079528_1079858_+\|holin	phage holin, lambda family	A0A0M3ULK9	Salmonella_phage	2.2e-55	99.1
WP_000984586.1\|1079841_1080294_+	lysozyme	A0A0M4R365	Salmonella_phage	2.3e-79	97.3
WP_077906338.1\|1080311_1080761_+\|lysis	lysis protein	H6WRZ5	Salmonella_phage	2.0e-59	83.2
WP_001064345.1\|1080978_1081503_+	Rha family transcriptional regulator	G8C7W4	Escherichia_phage	9.8e-90	96.5
WP_001118127.1\|1081565_1082186_+	hypothetical protein	A0A0M3ULJ9	Salmonella_phage	5.0e-109	100.0
WP_001130806.1\|1082196_1083819_+	hypothetical protein	A0A0M5M1R6	Salmonella_phage	0.0e+00	99.3
WP_000113509.1\|1083818_1085288_+	DUF1073 domain-containing protein	A0A0M4S6U1	Salmonella_phage	5.8e-281	99.4
WP_157862692.1\|1085172_1085910_+\|head	phage head morphogenesis protein	A0A0M4REK0	Salmonella_phage	2.5e-99	87.1
WP_000873182.1\|1085924_1087157_+	DUF2213 domain-containing protein	A0A0M4R5A6	Salmonella_phage	1.4e-227	99.0
WP_000128058.1\|1087161_1087659_+	hypothetical protein	A0A0M4QWZ6	Salmonella_phage	3.0e-88	100.0
WP_000627465.1\|1087670_1088612_+	DUF2184 domain-containing protein	A0A0M3ULD3	Salmonella_phage	2.5e-176	98.7
WP_001040692.1\|1088653_1089022_+	hypothetical protein	A0A0M4RTX5	Salmonella_phage	5.7e-60	98.4
WP_001125676.1\|1088987_1089395_+	DUF4054 domain-containing protein	A0A0M5M3S2	Salmonella_phage	3.0e-70	95.6
WP_000008735.1\|1089391_1089946_+	hypothetical protein	A0A0M4S631	Salmonella_phage	4.1e-94	98.9
WP_001142487.1\|1089932_1090322_+	hypothetical protein	A0A0M3ULK0	Salmonella_phage	3.0e-67	97.7
WP_000389380.1\|1090296_1090860_+	hypothetical protein	A0A0M4R331	Salmonella_phage	7.6e-80	75.3
WP_001135546.1\|1090863_1092009_+	DUF3383 domain-containing protein	A0A2H4J8G4	uncultured_Caudovirales_phage	5.9e-164	74.8
WP_000535993.1\|1092021_1092465_+	DUF3277 family protein	A0A2H4J619	uncultured_Caudovirales_phage	6.0e-56	74.5
WP_001540657.1\|1092468_1092921_+	hypothetical protein	A0A0M4S6U8	Salmonella_phage	8.5e-58	77.2
WP_000990868.1\|1093098_1094733_+	hypothetical protein	A0A0M4REK7	Salmonella_phage	6.8e-97	45.0
WP_000346977.1\|1094732_1095383_+	hypothetical protein	A0A0M3ULD5	Salmonella_phage	3.9e-56	60.6
WP_000388505.1\|1095386_1095689_+	hypothetical protein	A0A2H4J495	uncultured_Caudovirales_phage	2.0e-26	57.0
WP_000042299.1\|1095691_1096723_+	hypothetical protein	A0A2H4J1B2	uncultured_Caudovirales_phage	3.3e-97	51.7
WP_000826019.1\|1096719_1097055_+	hypothetical protein	A0A2H4J1A5	uncultured_Caudovirales_phage	1.1e-20	52.2
WP_000818611.1\|1097061_1097439_-	Arc family DNA-binding protein	A0A0P0ZBD1	Stx2-converting_phage	6.7e-16	75.4
WP_000414162.1\|1097539_1097698_+	Arc family DNA-binding protein	A0A077KAX5	Edwardsiella_phage	2.1e-11	71.4
WP_001028071.1\|1097771_1098335_+	Bro-N domain-containing protein	H6WRU8	Salmonella_phage	4.5e-32	59.0
WP_000377246.1\|1098399_1099185_+	Bro-N domain-containing protein	A0A2L1IV39	Escherichia_phage	2.2e-85	62.7
WP_012664453.1\|1099248_1100004_+	hypothetical protein	A0A0M5M1K7	Salmonella_phage	7.7e-104	78.1
WP_001270647.1\|1100139_1100493_+	hypothetical protein	A0A0M4R339	Salmonella_phage	3.2e-60	98.3
WP_001197090.1\|1100493_1101693_+\|plate	baseplate J/gp47 family protein	A0A0M4RD32	Salmonella_phage	2.0e-215	98.2
WP_000049934.1\|1101689_1102370_+	DUF2612 domain-containing protein	A0A0M5M1K4	Salmonella_phage	1.2e-127	97.3
WP_001096992.1\|1102369_1103782_+	hypothetical protein	A0A1B0V7G4	Salmonella_phage	9.1e-207	81.9
WP_001287103.1\|1103788_1104205_+\|tail	tail fiber assembly protein	A0A1B0V844	Salmonella_phage	8.4e-68	94.0
WP_071820468.1\|1105021_1106512_-	type III secretion effector GogB	Q9MBM1	Phage_Gifsy-1	5.2e-253	98.1
WP_000790151.1\|1106916_1108716_+	elongation factor 4	A0A2K9L6L3	Tupanvirus	1.2e-22	41.2

DBSCAN-SWA_3

1323835 : 1375407

Salmonella_phage(39.66%)

terminase,portal,transposase,lysis,protease,head,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_086011253.1\|1323835_1325090_+\|transposase	IS3-like element ISSen1 family transposase	Q6H9S3	Enterobacteria_phage	2.2e-18	34.5
WP_000484427.1\|1325091_1326009_-	kdo(2)-lipid IV(A) palmitoleoyltransferase	A0A1W6JP29	Morganella_phage	1.1e-75	53.5
WP_000639889.1\|1326530_1326773_+	YfdY family protein	NA	NA	NA	NA
WP_000955742.1\|1327048_1328440_-	phosphoglycerate transporter PgtP	NA	NA	NA	NA
WP_024131674.1\|1328875_1330069_+	phosphoglycerate transport regulator PgtC	NA	NA	NA	NA
WP_000678493.1\|1330065_1332072_+	two-component system sensor histidine kinase PgtB	NA	NA	NA	NA
WP_000930836.1\|1332061_1333309_+	two-component system response regulator PgtA	NA	NA	NA	NA
WP_000716014.1\|1333576_1334515_+\|protease	omptin family outer membrane protease PgtE	NA	NA	NA	NA
WP_001208732.1\|1334776_1334980_-	hypothetical protein	C6ZR24	Salmonella_phage	2.7e-32	97.0
WP_001283605.1\|1335076_1335712_-	DUF5420 family protein	A0A075B8I7	Enterobacteria_phage	2.5e-108	89.1
WP_000024386.1\|1336913_1337105_-	hypothetical protein	NA	NA	NA	NA
WP_001017849.1\|1337106_1337901_-	ead/Ea22-like family protein	B9UDM4	Salmonella_phage	3.8e-53	50.2
WP_000065341.1\|1337897_1338299_-	ParB/RepB/Spo0J family partition protein	S4TTI6	Salmonella_phage	2.9e-73	100.0
WP_000070064.1\|1338295_1338529_-	hypothetical protein	S4TVX5	Salmonella_phage	5.6e-13	46.2
WP_157862693.1\|1338525_1338678_-	hypothetical protein	NA	NA	NA	NA
WP_024131676.1\|1338674_1339154_-	hypothetical protein	Q5G8U6	Enterobacteria_phage	3.7e-27	54.9
WP_000041527.1\|1339495_1339777_-	HNH endonuclease	K7PHS8	Enterobacteria_phage	1.4e-50	97.8
WP_001214776.1\|1339763_1339940_-	DUF2737 family protein	K7PL43	Enterobacteria_phage	4.5e-23	91.4
WP_000097968.1\|1339950_1340244_-	DUF2856 family protein	A0A192Y654	Salmonella_phage	4.9e-22	57.7
WP_001061371.1\|1340261_1340810_-	3'-5' exoribonuclease	C6ZR35	Salmonella_phage	1.3e-100	95.6
WP_001046989.1\|1341324_1342032_-	recombinase	A0A192Y857	Salmonella_phage	4.1e-131	94.5
WP_000902090.1\|1342028_1342172_-	hypothetical protein	A0A1R3Y5R4	Salmonella_virus	9.3e-19	97.9
WP_000156731.1\|1342161_1342350_-	DUF5444 family protein	I6S647	Salmonella_phage	3.7e-31	100.0
WP_012664477.1\|1342330_1342504_-\|protease	protease FtsH-inhibitory lysogeny factor CIII	I6R987	Salmonella_phage	4.4e-23	96.2
WP_000776962.1\|1342573_1342888_-	superinfection exclusion protein	E7C9Q4	Salmonella_phage	1.9e-56	100.0
WP_000532743.1\|1343039_1343240_-	hypothetical protein	A0A2H4FQS9	Salmonella_phage	1.8e-28	89.4
WP_001110034.1\|1343513_1343813_-	hypothetical protein	A0A1R3Y5U4	Salmonella_virus	1.4e-48	96.0
WP_000680460.1\|1343850_1344018_-	hypothetical protein	A0A0K2FH54	Enterobacter_phage	2.2e-11	53.8
WP_000216170.1\|1344026_1344365_-	hypothetical protein	E7C9Q7	Salmonella_phage	1.9e-54	94.6
WP_023138238.1\|1344730_1345363_-	helix-turn-helix domain-containing protein	A0A1I9KG86	Aeromonas_phage	2.8e-30	43.0
WP_000447947.1\|1345463_1345679_+	helix-turn-helix transcriptional regulator	Q716D6	Shigella_phage	1.1e-18	69.0
WP_000424136.1\|1345787_1346078_+	hypothetical protein	I6RSP4	Salmonella_phage	9.0e-45	99.0
WP_000062368.1\|1346239_1346938_+	helix-turn-helix domain-containing protein	A0A0P0ZC04	Stx2-converting_phage	3.6e-55	55.1
WP_012664479.1\|1347048_1348929_+	toprim domain-containing protein	A0A0M4R313	Salmonella_phage	0.0e+00	98.6
WP_001064630.1\|1348929_1349208_+	hypothetical protein	C6ZR54	Salmonella_phage	1.0e-45	94.6
WP_000736885.1\|1349281_1349869_+	HNH endonuclease	A0A1B1W266	Salmonella_phage	5.3e-36	47.2
WP_000650394.1\|1349870_1350299_+	recombination protein NinB	K7PKW7	Enterobacterial_phage	3.9e-60	79.5
WP_001254237.1\|1350295_1350478_+	NinE family protein	C6ZR57	Salmonella_phage	3.7e-28	98.3
WP_000566855.1\|1350474_1350651_+	protein ninF	A0A0M4S6T3	Salmonella_phage	1.9e-26	94.8
WP_001008212.1\|1350906_1351302_+	RusA family crossover junction endodeoxyribonuclease	A0A0M4REJ2	Salmonella_phage	1.7e-70	97.7
WP_000149925.1\|1351298_1351502_+	phage NinH family protein	A0A075B8J4	Enterobacteria_phage	7.2e-33	100.0
WP_000219132.1\|1351482_1351662_+	hypothetical protein	A0A1V0E5I7	Salmonella_phage	1.6e-23	98.3
WP_000027546.1\|1351658_1352177_+	DUF1133 family protein	A0A1R3Y5U9	Salmonella_virus	5.5e-93	97.7
WP_000783734.1\|1352637_1352961_+\|holin	phage holin, lambda family	G5DA93	Enterobacteria_phage	1.3e-52	100.0
WP_000229384.1\|1352944_1353421_+	glycoside hydrolase family protein	K7PKV2	Enterobacteria_phage	8.3e-88	99.4
WP_000092299.1\|1353417_1353885_+\|lysis	lysis protein	Q76H63	Enterobacteria_phage	4.8e-72	94.2
WP_001177704.1\|1354097_1354784_+	Rha family transcriptional regulator	A0A192Y918	Salmonella_phage	1.8e-123	99.6
WP_000807788.1\|1355226_1355469_+	DUF2560 family protein	A5VW77	Enterobacteria_phage	1.3e-36	100.0
WP_000113730.1\|1355471_1355915_+	hypothetical protein	C7U0W1	Enterobacteria_phage	1.2e-64	93.8
WP_000138925.1\|1355911_1357390_+\|terminase	PBSX family phage terminase large subunit	A5VW75	Enterobacteria_phage	6.0e-177	65.4
WP_000818368.1\|1357391_1359590_+\|portal	portal protein	A0A088CQ69	Enterobacteria_phage	0.0e+00	97.4
WP_000372575.1\|1359680_1360574_+	scaffold protein	A0A088CPT0	Enterobacteria_phage	4.3e-130	99.0
WP_000013264.1\|1360592_1361846_+	hypothetical protein	A5VW72	Enterobacteria_phage	1.8e-235	99.0
WP_001389518.1\|1361887_1362076_+	hypothetical protein	A0A088CPR7	Enterobacteria_phage	2.9e-28	100.0
WP_001140510.1\|1362056_1362518_+\|head	head DNA stabilization protein	A5VW70	Enterobacteria_phage	7.1e-84	100.0
WP_001122373.1\|1362527_1363946_+	packaged DNA stabilization protein gp10	A0A2D1GM00	Escherichia_phage	1.5e-273	98.1
WP_000774921.1\|1363949_1364588_+	hypothetical protein	A0A088CPT1	Enterobacteria_phage	4.2e-87	96.2
WP_000627591.1\|1364587_1365043_+	DUF2824 family protein	B8K1I4	Salmonella_phage	2.0e-86	98.7
WP_000964874.1\|1365045_1365741_+	hypothetical protein	G5DA80	Enterobacteria_phage	1.8e-91	99.4
WP_000246928.1\|1365750_1367046_+	phage DNA ejection protein	Q716G3	Shigella_phage	6.2e-186	91.4
WP_001029839.1\|1367045_1369043_+	hypothetical protein	Q716G2	Shigella_phage	0.0e+00	91.0
WP_077906307.1\|1369175_1369475_+	hypothetical protein	Q76H12	Enterobacteria_phage	7.4e-50	99.0
WP_000532177.1\|1369495_1369744_-	Arc family DNA-binding protein	Q76H48	Enterobacteria_phage	1.8e-38	100.0
WP_012664485.1\|1369879_1371631_+	right-handed parallel beta-helix repeat-containing protein	I6S5Y0	Salmonella_phage	3.0e-58	87.5
WP_110161801.1\|1371694_1372834_-	acyltransferase	A0A2H4JA46	uncultured_Caudovirales_phage	3.6e-20	25.8
WP_000377767.1\|1374465_1375407_-	formate/nitrite transporter family protein	E7DYY8	Enterobacteria_phage	3.2e-147	87.8

DBSCAN-SWA_4

1611787 : 1620956

Enterobacteria_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000569173.1\|1611787_1612735_+	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	1.7e-23	31.2
WP_000824848.1\|1612718_1613450_+	ABC transporter permease	NA	NA	NA	NA
WP_001261696.1\|1613430_1613538_-	protein YohO	NA	NA	NA	NA
WP_001240418.1\|1613597_1614329_-	HTH-type transcriptional regulator MlrA	Q9EYF2	Enterobacteria_phage	4.5e-101	87.9
WP_000272854.1\|1614551_1616237_+	sensor histidine kinase	Q9EYF3	Enterobacteria_phage	8.1e-279	91.3
WP_000598637.1\|1616233_1616953_+	two-component system response regulator BtsR	NA	NA	NA	NA
WP_000950413.1\|1616999_1617467_+	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	3.9e-74	90.3
WP_000703137.1\|1618223_1618682_-	YehR family lipoprotein	Q9EYF5	Enterobacteria_phage	8.4e-53	72.5
WP_000195341.1\|1618922_1620956_-\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	6.1e-55	26.9

DBSCAN-SWA_5

1789352 : 1796601

Morganella_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000394197.1\|1789352_1789772_+	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	8.5e-36	60.5
WP_012664534.1\|1789774_1791043_+	Y-family DNA polymerase	I6RSM4	Salmonella_phage	4.3e-224	91.5
WP_000208509.1\|1791497_1791710_+	cold-shock protein	A0A1W6JNX5	Morganella_phage	3.9e-21	70.0
WP_024131163.1\|1791720_1791909_+	hypothetical protein	NA	NA	NA	NA
WP_001080669.1\|1792167_1793361_-	porin OmpS1	Q1MVN1	Enterobacteria_phage	1.5e-109	56.0
WP_000107439.1\|1794010_1794322_+	hypothetical protein	NA	NA	NA	NA
WP_000377046.1\|1794401_1795097_+	phosphohydrolase	A0A1D6Y7U0	Golden_Marseillevirus	4.3e-08	27.6
WP_001157303.1\|1795170_1796601_+	DNA cytosine methyltransferase	E5E3X6	Burkholderia_phage	1.0e-104	57.4

DBSCAN-SWA_6

2699039 : 2788920

Salmonella_phage(41.67%)

terminase,portal,integrase,protease,tail,tRNA,holin

attL 2693643:2693657|attR 2777232:2777246

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2693643:2693657	attL	NA	NA	NA	NA
WP_000938189.1\|2699039_2699720_+\|protease	type III secretion system effector protease PipA	Q9MBM0	Phage_Gifsy-2	1.3e-73	66.4
WP_000374046.1\|2700338_2700998_+\|protease	FtsH protease modulator YccA	A0A2H4JFM9	uncultured_Caudovirales_phage	2.7e-44	52.4
WP_000904446.1\|2701084_2701414_+	sulfurtransferase TusE	NA	NA	NA	NA
WP_000072884.1\|2701410_2701692_-	acylphosphatase	NA	NA	NA	NA
WP_000548082.1\|2701740_2702520_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_000859416.1\|2702545_2703094_-	YbhB/YbcL family Raf kinase inhibitor-like protein	NA	NA	NA	NA
WP_000140474.1\|2703308_2704520_+	23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI	NA	NA	NA	NA
WP_000561983.1\|2704577_2704895_+	heat shock protein HspQ	NA	NA	NA	NA
WP_001537782.1\|2704939_2705353_-	CoA-binding protein	NA	NA	NA	NA
WP_000847732.1\|2705526_2706189_+	DUF2057 family protein	NA	NA	NA	NA
WP_000424187.1\|2706283_2706742_+	methylglyoxal synthase	NA	NA	NA	NA
WP_000420529.1\|2706777_2708832_-	DNA helicase IV	A7KV33	Bacillus_phage	6.5e-20	27.6
WP_001261222.1\|2708955_2709402_+	YccF domain-containing protein	NA	NA	NA	NA
WP_000950883.1\|2709420_2711574_+	TIGR01666 family membrane protein	NA	NA	NA	NA
WP_001202378.1\|2711560_2712169_-	TfoX/Sxy family DNA transformation protein	NA	NA	NA	NA
WP_000288731.1\|2712385_2712895_+	cell division inhibitor SulA	NA	NA	NA	NA
WP_001539650.1\|2713251_2714304_+	porin OmpA	NA	NA	NA	NA
WP_000877172.1\|2714375_2714828_-	macrodomain Ter protein MatP	NA	NA	NA	NA
WP_000156451.1\|2715012_2716773_+\|protease	Lon protease family protein	NA	NA	NA	NA
WP_000227928.1\|2716841_2717360_+	bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase	NA	NA	NA	NA
WP_001537784.1\|2717459_2717627_-	ribosome modulation factor	NA	NA	NA	NA
WP_000759136.1\|2717882_2718446_-	membrane integrity-associated transporter subunit PqiC	NA	NA	NA	NA
WP_000433417.1\|2718442_2720083_-	intermembrane transport protein PqiB	NA	NA	NA	NA
WP_000333141.1\|2720087_2721341_-	membrane integrity-associated transporter subunit PqiA	NA	NA	NA	NA
WP_000053044.1\|2721355_2723263_-	ABC transporter ATP-binding protein	A0A2K9L3Z8	Tupanvirus	2.4e-53	29.8
WP_001086477.1\|2723275_2725384_-	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	NA	NA	NA
WP_000224080.1\|2725482_2726592_+	MOSC domain-containing protein	NA	NA	NA	NA
WP_001220671.1\|2726588_2727131_-	cell division protein ZapC	NA	NA	NA	NA
WP_000291723.1\|2727296_2728307_-	quinone-dependent dihydroorotate dehydrogenase	NA	NA	NA	NA
WP_000193762.1\|2728514_2731127_-	aminopeptidase N	A0A0P0IY26	Acinetobacter_phage	6.3e-20	22.4
WP_000497441.1\|2731553_2731745_+	DinI-like family protein	S4TNM0	Salmonella_phage	6.2e-26	95.2
WP_001525490.1\|2732014_2732701_+	hypothetical protein	NA	NA	NA	NA
WP_010989011.1\|2732685_2732985_+	hypothetical protein	NA	NA	NA	NA
WP_000334548.1\|2733053_2733680_+	SOS response-associated peptidase	A0A2H4J5W2	uncultured_Caudovirales_phage	1.4e-66	63.2
WP_012664643.1\|2734327_2735206_-	SPI-2 type III secretion system effector SseI	Q9MBL9	Phage_Gifsy-2	1.2e-172	99.0
WP_000143167.1\|2735770_2736352_-\|tail	tail fiber assembly protein	A0A0M4RTP2	Salmonella_phage	1.7e-95	89.5
WP_001144684.1\|2736351_2738559_-\|tail	prophage tail fiber N-terminal domain-containing protein	E5G6P0	Salmonella_phage	6.2e-77	51.5
WP_000178849.1\|2738612_2738855_-	hypothetical protein	NA	NA	NA	NA
WP_192574529.1\|2738893_2741359_-	DUF1983 domain-containing protein	A0A0K2FI38	Escherichia_phage	7.5e-265	66.4
WP_045723188.1\|2741274_2742243_-	host specificity protein J	A0A2I6TCW5	Escherichia_phage	3.4e-128	73.3
WP_041030834.1\|2742314_2743019_-\|tail	tail assembly protein	A5LH42	Enterobacteria_phage	3.2e-67	63.1
WP_000606351.1\|2742916_2743654_-\|tail	phage tail protein	A0A0P0ZE89	Stx2-converting_phage	1.6e-114	76.1
WP_001152415.1\|2743663_2744359_-\|tail	phage minor tail protein L	A0A0K2FJ01	Enterobacteria_phage	1.3e-89	66.7
WP_000877926.1\|2744448_2744982_+	superoxide dismutase [Cu-Zn]	Q9MC02	Salmonella_phage	1.8e-46	54.0
WP_000725267.1\|2745098_2745596_-	Ail/Lom family outer membrane beta-barrel protein	A0A1B0VBR9	Salmonella_phage	1.4e-16	36.6
WP_000978294.1\|2745694_2746027_-\|tail	phage tail protein	A5LH39	Enterobacteria_phage	7.4e-35	60.6
WP_010989010.1\|2746023_2749011_-\|tail	phage tail tape measure protein	A0A291AWX1	Escherichia_phage	8.2e-266	62.1
WP_010989009.1\|2749090_2749420_-\|tail	phage tail assembly protein T	A5LH37	Enterobacteria_phage	5.0e-23	50.9
WP_000478859.1\|2749416_2749815_-\|tail	phage minor tail protein G	K7PLV8	Enterobacteria_phage	8.6e-30	56.8
WP_000132756.1\|2749860_2750610_-\|tail	phage tail protein	A0A291AWU6	Escherichia_phage	3.7e-90	68.6
WP_000196703.1\|2750621_2751023_-\|tail	tail protein	K7PHM6	Enterobacterial_phage	2.0e-42	60.9
WP_000453192.1\|2751019_2751586_-\|tail	phage tail protein	Q9G063	Phage_Gifsy-2	2.1e-13	95.7
WP_000774239.1\|2751566_2751866_-	ATP-binding protein	K7PH43	Enterobacteria_phage	4.5e-15	45.1
WP_001107905.1\|2751858_2752182_-	DUF2190 family protein	K7PLV6	Enterobacteria_phage	6.6e-28	60.4
WP_077906341.1\|2752272_2754354_-\|protease	Clp protease ClpP	A0A291AWT6	Escherichia_phage	3.1e-264	69.3
WP_001009210.1\|2754277_2755825_-\|portal	phage portal protein	A0A291AWU2	Escherichia_phage	1.4e-176	64.0
WP_000196190.1\|2755821_2756028_-	hypothetical protein	A0A1W6JT66	Pseudomonas_phage	2.9e-05	53.3
WP_000989240.1\|2756024_2758163_-\|terminase	phage terminase large subunit family protein	A5LH27	Enterobacteria_phage	2.2e-289	72.5
WP_000371784.1\|2758119_2758653_-	DUF1441 family protein	A0A291AWV8	Escherichia_phage	1.0e-33	48.1
WP_110161804.1\|2758949_2759138_-	hypothetical protein	A0A0P0ZE50	Stx2-converting_phage	2.9e-12	66.7
WP_000984586.1\|2759357_2759810_-	lysozyme	A0A0M4R365	Salmonella_phage	2.3e-79	97.3
WP_077905918.1\|2759793_2760123_-\|holin	phage holin, lambda family	A0A0M3ULK9	Salmonella_phage	2.2e-55	99.1
WP_001539630.1\|2760398_2761085_+	PipA/GogA/GtgA family type III secretion system effector	Q9MBM0	Phage_Gifsy-2	1.8e-131	99.1
WP_000993185.1\|2761205_2761886_-	antitermination protein	I6PDF8	Cronobacter_phage	1.2e-60	54.5
WP_000801757.1\|2761882_2762023_-	YlcG family protein	A0A0M5M7B2	Salmonella_phage	7.2e-08	78.9
WP_001096549.1\|2762019_2762631_-	recombination protein NinG	A0A0M4RU10	Salmonella_phage	1.2e-91	99.0
WP_000929804.1\|2762839_2763442_-	DUF1367 family protein	S4TTI0	Salmonella_phage	6.3e-109	98.5
WP_001217670.1\|2763776_2764016_-	DinI family protein	H6WRY5	Salmonella_phage	3.9e-38	100.0
WP_000207965.1\|2764530_2764812_-	hypothetical protein	Q5G8V2	Enterobacteria_phage	6.5e-16	61.0
WP_000224241.1\|2764822_2765080_-	hypothetical protein	A0A192Y5W0	Salmonella_phage	1.3e-42	100.0
WP_001276150.1\|2765082_2765346_-	hypothetical protein	A0A2H4A316	Salmonella_phage	4.5e-19	85.7
WP_000113619.1\|2765693_2766041_-	DUF977 family protein	H6WRX9	Salmonella_phage	3.6e-56	95.7
WP_000800012.1\|2766051_2766801_-	ATP-binding protein	S4TNF5	Salmonella_phage	4.3e-139	100.0
WP_001540689.1\|2766803_2767787_-	replication protein	H6WRX7	Salmonella_phage	1.9e-163	100.0
WP_012664651.1\|2767871_2768246_-	hypothetical protein	S4TTD7	Salmonella_phage	1.9e-63	99.2
WP_000869364.1\|2768211_2768448_-	helix-turn-helix domain-containing protein	H6WRX5	Salmonella_phage	1.8e-38	100.0
WP_001009037.1\|2768577_2768982_+	transcriptional regulator	H6WRX4	Salmonella_phage	1.6e-71	99.3
WP_000551854.1\|2769380_2769551_+	hypothetical protein	K7PGY4	Enterobacteria_phage	3.3e-07	51.0
WP_001539619.1\|2769572_2769923_+	hypothetical protein	S4TSN6	Salmonella_phage	1.1e-60	97.4
WP_000017137.1\|2770049_2772977_+	PD-(D/E)XK nuclease-like domain-containing protein	S4TNL0	Salmonella_phage	0.0e+00	99.8
WP_001539618.1\|2772939_2774097_+	recombinase RecT	S4TTE8	Salmonella_phage	1.6e-217	100.0
WP_001237031.1\|2774139_2774379_+	DUF4060 family protein	S4TR31	Salmonella_phage	2.0e-37	100.0
WP_001670787.1\|2774419_2774704_+	excisionase Xis	H6WRW8	Salmonella_phage	3.1e-42	86.2
WP_001007939.1\|2774681_2775911_-\|integrase	site-specific integrase	H6WRW7	Salmonella_phage	2.9e-233	94.4
WP_000589087.1\|2776408_2776888_-	SoxR-reducing system protein RseC	NA	NA	NA	NA
WP_000812017.1\|2776884_2777841_-	sigma-E factor regulatory protein RseB	NA	NA	NA	NA
2777232:2777246	attR	NA	NA	NA	NA
WP_001168374.1\|2777840_2778491_-	anti-sigma-E factor RseA	NA	NA	NA	NA
WP_000003307.1\|2778522_2779098_-	RNA polymerase sigma factor RpoE	NA	NA	NA	NA
WP_014344135.1\|2779094_2779259_-	rpoE leader peptide RseD	NA	NA	NA	NA
WP_000989182.1\|2779522_2781145_+	L-aspartate oxidase	NA	NA	NA	NA
WP_000083343.1\|2781129_2781867_-\|tRNA	tRNA(1)(Val) (adenine(37)-N(6))-methyltransferase TrmN	NA	NA	NA	NA
WP_000219174.1\|2781996_2783331_+	ATP-dependent RNA helicase SrmB	A0A1B1IS59	uncultured_Mediterranean_phage	1.6e-43	29.7
WP_001625993.1\|2783348_2784248_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_000188414.1\|2784350_2784938_+	cysteine/O-acetylserine transporter	NA	NA	NA	NA
WP_000627811.1\|2784999_2785383_-	autonomous glycyl radical cofactor GrcA	Q7Y524	Enterobacteria_phage	6.1e-33	74.0
WP_000179978.1\|2785701_2786391_+	uracil-DNA glycosylase	A0A172DS90	Canid_alphaherpesvirus	4.6e-55	49.5
WP_000997368.1\|2786506_2787544_-\|tRNA	tRNA/rRNA methyltransferase	NA	NA	NA	NA
WP_001098732.1\|2787747_2788167_+	thioredoxin TrxC	A0A0K2FIM3	Achromobacter_phage	1.2e-16	40.6
WP_000183642.1\|2788239_2788920_+\|tRNA	tRNA-uridine aminocarboxypropyltransferase	NA	NA	NA	NA

DBSCAN-SWA_7

4320354 : 4394911

Burkholderia_phage(39.13%)

tRNA,plate,holin,tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000186977.1\|4320354_4321455_-\|tRNA	tRNA (uridine(54)-C5)-methyltransferase TrmA	NA	NA	NA	NA
WP_000591403.1\|4321828_4323673_+	TonB-dependent vitamin B12 receptor BtuB	A0A0P0I887	Acinetobacter_phage	2.2e-11	30.0
WP_000201804.1\|4323617_4324469_+	glutamate racemase	NA	NA	NA	NA
WP_000973248.1\|4330351_4330789_-	acetyltransferase	NA	NA	NA	NA
WP_001122767.1\|4330945_4331875_+	homoserine O-succinyltransferase	NA	NA	NA	NA
WP_001069372.1\|4332143_4333745_+	malate synthase A	NA	NA	NA	NA
WP_000857884.1\|4333776_4335081_+	isocitrate lyase	NA	NA	NA	NA
WP_001137275.1\|4335182_4336934_+	bifunctional isocitrate dehydrogenase kinase/phosphatase	NA	NA	NA	NA
WP_077905932.1\|4336897_4337305_-	ASCH domain-containing protein	NA	NA	NA	NA
WP_000226434.1\|4337315_4338140_-	glyoxylate bypass operon transcriptional repressor IclR	NA	NA	NA	NA
WP_000095981.1\|4338449_4342133_+	methionine synthase	A0A140XBC7	Dickeya_phage	1.3e-26	90.2
WP_000956811.1\|4342399_4344031_+	Na/Pi cotransporter family protein	NA	NA	NA	NA
WP_000421790.1\|4344106_4344796_-	dipeptidase PepE	NA	NA	NA	NA
WP_001541281.1\|4344867_4344969_+	hypothetical protein	NA	NA	NA	NA
WP_001096724.1\|4345003_4345543_+	DUF2058 domain-containing protein	NA	NA	NA	NA
WP_000954609.1\|4345589_4346459_+	23S rRNA pseudouridine(2604) synthase RluF	NA	NA	NA	NA
WP_001207628.1\|4346455_4346728_-	DUF3811 domain-containing protein	NA	NA	NA	NA
WP_000881654.1\|4346825_4347767_-	ketopantoate/pantoate/pantothenate transporter PanS	NA	NA	NA	NA
WP_000587743.1\|4348028_4348757_-	hypothetical protein	A0A292GAQ8	Xanthomonas_phage	3.5e-13	28.2
WP_000084338.1\|4349494_4349950_-	hypothetical protein	NA	NA	NA	NA
WP_001151757.1\|4349946_4350561_-	DUF4376 domain-containing protein	NA	NA	NA	NA
WP_000368206.1\|4350567_4352226_-\|tail	phage tail protein	A0A0M3ULH6	Salmonella_phage	1.8e-52	40.5
WP_000359503.1\|4352228_4352861_-\|tail	phage tail protein I	Q6QI98	Burkholderia_phage	1.1e-23	56.4
WP_000951730.1\|4352853_4353969_-\|plate	baseplate J/gp47 family protein	Q6QI99	Burkholderia_phage	3.1e-101	52.2
WP_001093501.1\|4353959_4354319_-	GPW/gp25 family protein	Q6QIA0	Burkholderia_phage	2.8e-35	64.2
WP_000632047.1\|4354482_4356030_-	hypothetical protein	B9UDL6	Salmonella_phage	2.5e-48	29.9
WP_000703637.1\|4356029_4356959_-	glycosyltransferase family 2 protein	S5FKN0	Shigella_phage	2.0e-149	83.4
WP_000593182.1\|4356955_4357318_-	GtrA family protein	I1TED9	Salmonella_phage	1.2e-43	70.8
WP_000679399.1\|4357644_4358367_-\|plate	phage baseplate assembly protein V	NA	NA	NA	NA
WP_000818153.1\|4358376_4359420_-	phage late control D family protein	Q6QIA2	Burkholderia_phage	1.2e-75	45.1
WP_001269715.1\|4359407_4359617_-\|tail	tail protein X	A4JWL2	Burkholderia_virus	2.6e-17	58.8
WP_000271432.1\|4359616_4360570_-\|tail	phage tail protein	A4JWL1	Burkholderia_virus	7.9e-37	51.5
WP_001262482.1\|4360569_4362924_-\|tail	phage tail tape measure protein	A4JWL0	Burkholderia_virus	9.0e-66	31.2
WP_001185655.1\|4363020_4363149_-\|tail	GpE family phage tail protein	NA	NA	NA	NA
WP_001003641.1\|4363108_4363426_-\|tail	phage tail assembly protein	NA	NA	NA	NA
WP_000907494.1\|4363477_4364002_-\|tail	phage major tail tube protein	Q6QIA9	Burkholderia_phage	2.8e-68	69.5
WP_000729853.1\|4364001_4365429_-\|tail	phage tail sheath family protein	A4JWK5	Burkholderia_virus	1.4e-194	70.9
WP_000875314.1\|4365418_4365616_-	hypothetical protein	Q6QIB1	Burkholderia_phage	8.6e-07	52.9
WP_000449439.1\|4365612_4366068_-	Gp37 family protein	NA	NA	NA	NA
WP_000777267.1\|4366226_4366541_-	hypothetical protein	Q6QIC4	Burkholderia_phage	8.3e-20	48.2
WP_001270437.1\|4366553_4367159_-	lytic transglycosylase domain-containing protein	Q5ZQZ1	Pseudomonas_phage	8.4e-61	60.4
WP_001226439.1\|4367161_4367449_-\|holin	putative holin	Q6QIC8	Burkholderia_phage	3.0e-16	48.1
WP_000615249.1\|4368023_4368371_+	DNA-binding protein	Q6QIE8	Burkholderia_phage	1.7e-21	51.5
WP_000136395.1\|4368423_4369773_-	lysine-sensitive aspartokinase 3	NA	NA	NA	NA
WP_000790028.1\|4370117_4371767_+	glucose-6-phosphate isomerase	NA	NA	NA	NA
WP_001541297.1\|4372210_4372453_+	outer membrane protein	NA	NA	NA	NA
WP_001541298.1\|4372486_4373155_+	YjbF family lipoprotein	NA	NA	NA	NA
WP_000977962.1\|4373151_4373889_+	capsule biosynthesis GfcC family protein	NA	NA	NA	NA
WP_000750792.1\|4373888_4375985_+	YjbH domain-containing protein	NA	NA	NA	NA
WP_000982749.1\|4376127_4376538_+	phosphate-starvation-inducible protein PsiE	NA	NA	NA	NA
WP_001252086.1\|4376703_4377594_-	maltose ABC transporter permease MalG	NA	NA	NA	NA
WP_000382570.1\|4377608_4379153_-	maltose ABC transporter permease MalF	NA	NA	NA	NA
WP_000695415.1\|4379284_4380475_-	maltose/maltodextrin ABC transporter substrate-binding protein MalE	NA	NA	NA	NA
WP_000179176.1\|4380836_4381946_+	maltose/maltodextrin ABC transporter ATP-binding protein MalK	Q6GZ03	Mycoplasma_phage	6.2e-17	47.2
WP_000973642.1\|4382034_4383393_+	maltoporin	NA	NA	NA	NA
WP_000782497.1\|4383556_4384474_+	maltose operon protein MalM	NA	NA	NA	NA
WP_000019230.1\|4384654_4385152_+	chorismate lyase	NA	NA	NA	NA
WP_000455248.1\|4385165_4386038_+	4-hydroxybenzoate octaprenyltransferase	NA	NA	NA	NA
WP_000017360.1\|4386136_4388557_-	glycerol-3-phosphate 1-O-acyltransferase PlsB	NA	NA	NA	NA
WP_000002900.1\|4388727_4389096_+	diacylglycerol kinase	NA	NA	NA	NA
WP_000646079.1\|4389204_4389813_+	repressor LexA	Q9G0C2	Lactococcus_phage	1.0e-13	38.0
WP_010989093.1\|4391308_4391422_+	hypothetical protein	NA	NA	NA	NA
WP_001030592.1\|4391443_4391653_+	CsbD family protein	NA	NA	NA	NA
WP_000416267.1\|4391752_4392268_-	zinc uptake transcriptional repressor Zur	NA	NA	NA	NA
WP_001039346.1\|4392514_4393825_+	conjugal transfer protein TraF	NA	NA	NA	NA
WP_001182218.1\|4393912_4394911_+\|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_012124

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_012125

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection